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Approaches to the Analysis of Proteomics and Transcriptomics Data based on Statistical Methodology
(2014)
Recent developments in genomics and molecular biology led to the generation of an enormous amount of complex data of different origin. This is demonstrated by a number of published results from microarray experiments in Gene Expression Omnibus. The number was growing in exponential pace over the last decade. The challenge of interpreting these vast amounts of data from different technologies led to the development of new methods in the fields of computational biology and bioinformatics. Researchers often want to represent biological phenomena in the most detailed and comprehensive way. However, due to the technological limitations and other factors like limited resources this is not always possible. On one hand, more detailed and comprehensive research generates data of high complexity that is very often difficult to approach analytically, however, giving bioinformatics a chance to draw more precise and deeper conclusions. On the other hand, for low-complexity tasks the data distribution is known and we can fit a mathematical model. Then, to infer from this mathematical model, researchers can use well-known and standard methodologies. In return for using standard methodologies, the biological questions we are answering might not be unveiling the whole complexity of the biological meaning. Nowadays it is a standard that a biological study involves generation of large amounts of data that needs to be analyzed with a statistical inference. Sometimes data challenge researchers with low complexity task that can be performed with standard and popular methodologies as in Proteomic analysis of mouse oocytes reveals 28 candidate factors of the "reprogrammome". There, we established a protocol for proteomics data that involves preprocessing of the raw data and conducting Gene Ontology overrepresentation analysis utilizing hypergeometric distribution. In cases, where the data complexity is high and there are no published frameworks a researcher could follow, randomization can be an approach to exploit. In two studies by The mouse oocyte proteome escapes maternal aging and CellFateScout - a bioinformatics tool for elucidating small molecule signaling pathways that drive cells in a specific direction we showed how randomization can be performed for distinct complex tasks. In The mouse oocyte proteome escapes maternal aging we constructed a random sample of semantic similarity score between oocyte transcriptome and random transcriptome subset of oocyte proteome size. Therefore, we could calculate whether the proteome is representative of the trancriptome. Further, we established a novel framework for Gene Ontology overrepresentation that involves randomization testing. Every Gene Ontology term is tested whether randomly reassigning all gene labels of belonging to or not belonging to this term will decrease the overall expression level in this term. In CellFateScout - a bioinformatics tool for elucidating small molecule signaling pathways that drive cells in a specific direction we validated CellFateScout against other well-known bioinformatics tools. We stated the question whether our plugin is able to predict small molecule effects better in terms of expression signatures. For this, we constructed a protocol that uses randomization testing. We assess here if the small molecule effect described as a (set of) active signaling pathways, as detected by our plugin or other bioinformatics tools, is significantly closer to known small molecule targets than a random path.
The dentate gyrus (DG) of the hippocampus is one of the stem cell housing niches in the adult mammalian brain. Canonical Wingless-type (Wnt) signals provided by the microenvironment are one of the major niche factors that regulate the differentiation of adult neural stem cells (aNSCs) towards the neuronal lineage. Wnts are part of a complex and diverse set of signaling pathways with a wide range of possible interactions. It remains unknown whether different canonical and non-canonical Wnt signals act in a stage-specific manner to regulate distinctive steps of adult hippocampal neurogenesis. Using in vitro assays on adult hippocampal NSCs, we identified an attenuation of canonical Wnt/ß-Catenin signaling responsiveness in the course of neuronal differentiation, while non-canonical Wnt/Planar Cell Polarity (PCP) signaling events progressively increased. Single-cell genetic manipulations were performed by using retroviral vectors to target dividing progenitor cells in the murine hippocampus. Retrovirus-mediated knockdown of ATP6AP2, a recently discovered core protein involved in both Wnt signaling pathways, revealed that the dual role of this adaptor protein is dependent on the signaling context that is present. We were able to confirm its dual role in neurogenic Wnt signaling in cultured adult hippocampal progenitors (AHPs) for both canonical Wnt signaling in proliferating AHPs and non-canonical Wnt signaling in differentiating AHPs. Specific knockdown of ATP6AP2 in neural progenitor cells in vivo resulted in a decreased induction of neuronal cell fate and severe morphological defects of newborn neurons, likely via altering both canonical and non-canonical Wnt signaling. Furthermore, in vivo knockdown of PCP core proteins CELSR1-3 and FZD3 mimicked the maturational defects of ATP6AP2-deficient neuroblasts but did not affect granule cell fate. In summary, the data presented here characterize a transition of Wnt signaling responsiveness from Wnt/ß-Catenin signaling to non-canonical Wnt/PCP signaling in the course of granule cell fate that was confirmed in a human pluripotent stem cell (hPSC)-based model of dentate granule neurogenesis. Our findings suggest that these pathways show stage-dependent activities and regulate distinct steps of adult dentate granule cell neurogenesis. Conclusively, we provide evidence for a stage-specific regulation of fate determination through the Wnt/ß-Catenin pathway and granule cell morphogenesis through the Wnt/PCP signaling pathway, including the FZD3-CELSR1-3 system. Additionally, the Wnt adaptor protein ATP6AP2 is involved in earlier and later stages of adult neurogenesis and its knockdown in vivo resembles all phenotypic features of both canonical and Wnt/PCP signaling mutants.
Heparin is an anticoagulant drug. It is important in the treatment of deep vein thrombosis,pulmonary embolism and during surgeries. Heparin-induced thrombocytopenia (HIT) is a severe adverse reaction caused by the formation of ultralarge complexes of platelet factor 4 (PF4) with unfractionated heparin (UFH). It can lead to limb loss or fatal events like stroke, myocardial infarction or pulmonary embolism. HIT has an incidence of about 3% in patients receiving anticoagulative heparin treatment. PF4 is a tetrameric protein, released from the α-granules of platelets upon activation. PF4 is known to form antigenic complexes with UFH accompanied by structural changes of PF4. In this thesis, the size and size distribution of PF4 and PF4/heparin complexes were analyzed using asymmetrical flow field-flow-fractionation (AF4), photon correlation spectroscopy (PCS) and atomic force microscopy (AFM). PF4 tends to form auto-aggregates and to adsorb to different surfaces, including regenerated cellulose, polyethersulfone, quartz and glass. The aggregates are less pronounced in solutions at isotonic NaCl concentration. Arginine and Tween 20 were identified as possible ingredients to hinder the auto-aggregation of PF4. Also, it is shown by combining circular dichroism (CD) spectroscopy, atomic force microscopy (AFM) and isothermal titration calorimetry (ITC) with UFH and defined chain length (16-, 8-, 6-, 5-mer) heparins that structural changes (i.e., increase in β-sheets) alone are not sufficient to induce antigenicity. While UFH, 16-, 8-, and 6-mer heparins all induced an increase in the antiparallel β-sheet content to > 30% (as determined by CD spectroscopy), complex antigenicity as measured by anti-PF4/heparin antibody binding in an enzyme-linked immunosorbent assay (EIA) was only induced by UFH and 16-mer heparin. Fondaparinux (5-mer heparin), which forms in vitro non-antigenic complexes with PF4, did not induce structural changes of PF4. Interestingly, the structural changes induced by antigenic UFH and 16-mer heparin but not by non-antigenic shorter heparins were reversible at higher heparin concentrations. Furthermore, the complexes formed by PF4 with longer heparins were larger than those formed with shorter heparins as shown by atomic force microscopy (AFM). UFH, HO16 and HO08 are able to form ultralarge multimolecular complexes with PF4. ITC data indicated strong electrostatic interactions and energetically unfavorable conformational changes of PF4 with longer heparins, while for the short heparins, favorable conformational changes in the structure of PF4 are induced. This explains the reversibility of the structural changes seen for UFH and HO16 upon addition of an over-saturating amount of heparin. Finally, using differential scanning calorimetry (DSC) the thermal stability of PF4 and PF4/heparin complexes was assessed. Despite its tendency to form auto-aggregates, PF4 is a heat-stable protein. This stability is, length dependently, even increased in complex with heparins. This work shows important differences in the binding between PF4 and heparins of different chain length and might be relevant for the understanding of other biological functions of heparins (e.g., involvement in allergic and inflammatory reactions).
Chemistry and biology of Phenolics isolated from Myricaria germanica (L.) Desv. (Tamaricaceae)
(2014)
In accordance with the recent worldwide interest in plant phenolics, which emerges from their broad range of biological activities, particular emphasis has been focused, in the present thesis, on the constitutive phenolics of the extract of Myricaria germanica (L.) Desv. (Tamaricaceae). During the current thesis twenty phenolics (1 – 20) were isolated and identified from the aqueous/ethanol extract of the whole Myricaria germanica plant. The isolates include four hitherto unknown natural phenolics (2, 10, 12 and 20). Also, the cytotoxic activities of M. germanica extract, column fractions, and one new natural isolate against three different solid tumor cell lines, namely, breast cancer (MCF-7), prostate (PC-3), and liver (Huh-7) cancer cell using SRB viability assay have been investigated and first insights into mode of action have been obtained.
Transcriptional repression of regulated structural genes in eukaryotes often depends on pleiotropic corepressor complexes. A well-known corepressor conserved from yeast to mammalian systems is Sin3. In addition to Sin3, yeast Cyc8/Tup1 corepressor complex also regulates a diverse set of genes. Both corepressors can be recruited to target genes via interaction with specific DNA-binding proteins, leading to down-regulation of a large number of unrelated structural genes by associated histone deacetylases (HDACs). In vitro interaction studies performed in this work by GST pull-down assays showed that various repressor proteins (such as Whi5, Stb1, Gal80, Rfx1, Ure2, Rdr1, Xbp1, Yhp1, Rox1, Yox1, Dal80 and Mot3) are indeed able to bind pleiotropic corepressors Sin3 and/or Cyc8/Tup1. All repressors interacting with Sin3 contact its paired amphipathic helix domains PAH1 and/or PAH2. Mapping experiments allowed the characterization of minimum repressor domains and to derive a sequence pattern which may be important for repressor interaction with Cyc8 or Sin3. Interactions for some pathway-specific repressors such as Cti6 and Fkh1 have been studied comprehensively; minimal domains of Cti6 and Fkh1 required for interaction with Sin3 have been mapped and subsequently investigated by mutational analysis. In vitro interaction studies could show that amino acids 350-506 of Cti6 bind PAH2 of Sin3. To analyze this Cti6-Sin3 interaction domain (CSID) in more detail, selected amino acids within CSID were replaced by alanine. It turned out that hydrophobic amino acids V467, L481 and L491 L492 L493 are important for Cti6-Sin3 binding. The results of this work also suggest that repression is not executed entirely via Sin3, but rather CSID is also important for contacting pleiotropic corepressor Cyc8. In addition to PAH2 of Sin3, CSID also binds to tetratricopeptide repeats (TPR) of Cyc8. Furthermore, in vitro mapping studies revealed that Fkh1 also binds PAH2 of corepressor Sin3 via its N-terminal domain (aa 51-125). Binding studies with mutagenized Fkh1-Sin3 interaction domain (FSID) showed that Fkh151-125 variants L74A and I78A were unable to bind PAH2 of Sin3. Confirming in vitro studies, Cti6350-506 and Fkh151-125 also displayed in vivo interaction with PAH2 of Sin3 by using the “yeast two -hybrid” system. Chromatin immunoprecipitation (ChIP) analyses have demonstrated Cti6 recruitment to promoters of genes such as RNR3 and SMF3 containing iron responsive elements (IRE). Importantly, Sin3 was also recruited to these promoters but only in the presence of functional Cti6. Similarly, recruitment of Fkh1 and Sin3 to promoters of cell-cycle regulated genes CLB2 and SWI5 was shown. Recruitment of Sin3 was completely Fkh1-dependent. Additional findings of this work shed light on the fact that not only repressor proteins may contact Sin3 but also activator proteins not yet considered for interaction, e. g. specific activators such as Pho4 and Ino2. These findings indicate that Sin3 may fulfill functions beyond acting as a corepressor. In vitro studies on Sin3-Pho4 interaction showed that aa 156-208 of Pho4 are able to bind both PAH1 and PAH2 of Sin3, while an internal region of Ino2 comprising amino acids 119-212 binds to both Sin3 and Cyc8.
This study validates a newly-developed scale of consumer culture at individual-level in purchase-consumption context. Following unipolar approach in measurement, the applicable-reliable scale for consumer culture analyzes plausible effects of the seven cultural dimensions on three selected consumer-behaviors; anticipated regret, and two further purchase behaviors of variety-seeking and Quality-consciousness, comparing both Hedonic and Utilitarian aspect of consumer decisions. The interaction among the three behavioral variables are also studied. Feeling the necessity of cultural investigations in rather-unknown countries, Iran and Germany are focused.Iran is among the culturally undiscovered markets with an ever increasing demand; also German consumers have several unknown aspects in their purchase behaviors. Finally, the role of contextual elements — nationality, demographic profile and task— in consumer purchase behaviors are separately analyzed.
Magnetic reconnection is a ubiquitous phenomenon observed in a wide range of magnetized plasmas from magnetic confinement fusion devices to space plasmas in the magnetotail. The process enables the release of accumulated magnetic energy by rapid changes in magnetic topology, heating the plasma in the vicinity of the reconnection site, generating fast particles and allowing a wealth of instabilities to grow. This thesis reports on the results from a newly constructed linear, cylindrical and modular guide field reconnection experiment with highly reproducible events, VINETA.II. A detailed analysis of the reconnecting current sheet properties on a macroscopic and microscopic scale in time and space is presented. In the experiment, four parallel axial wires create a figure-eight in-plane magnetic field with an X-line along the central axis, as well as an axial inductive field that drives magnetic reconnection. Particle-in-cell simulations show that the axial current is limited by sheaths at the boundaries and that electrostatic fields along the device axis always set up in response to the induced electric field. Current sheet formation requires an additional electron current source, realized as a plasma gun, which discharges into a homogeneous background plasma created by a rf antenna. The evolution of the plasma current is found to be dominantly set by its electrical circuit. The current response to the applied electric field is mainly inductive, which in turn strongly influences the reconnection rate. The three-dimensional distribution of the current sheet is determined by the magnetic mapping of the plasma gun along the sheared magnetic field lines, as well as by radial cross-field expansion. This expansion is due to a lack of equilibrium in the in-plane force balance. Resistive diffusion of the magnetic field by E=η j is found to be by far insufficient to account for the high reconnection rate E=-dΨ/dt at the X-line, indicating the presence of large electrostatic fields which do not contribute to dissipative reconnection. High-frequency magnetic fluctuations are observed throughout the current sheet which are compared to qualitatively similar observations in the Magnetic Reconnection Experiment (MRX, Princeton). The turbulent fluctuation spectra in both experiments display a spectral kink near the lower hybrid frequency, indicating the presence of lower hybrid type instabilities. In contrast to the expected perpendicular propagation of mainly electrostatic waves, an electromagnetic wave is found in VINETA.II that propagates along the guide field and matches the whistler wave dispersion. Good correlation is observed between the local axial current density and the fluctuation amplitude across the azimuthal plane. Instabilities driven by parallel drifts can be excluded due to the large required drift velocities or low resulting phase velocities that are not observed. It is instead suggested that a perpendicular, electrostatic lower hybrid mode indeed exists that resonantly excites a parallel, electromagnetic whistler wave through linear mode conversion. The resulting fluctuations are found to be intrinsic to the localized current sheet and are independent of the slower reconnection dynamics. Their amplitude is small compared to the in-plane fields, and have a negligible contribution to anomalous resistivity through momentum transport in the present parameter regime.
In the search for new antifungal agents, this study dealt with the antimicrobial screening, extraction, isolation, structural elucidation as well as selective biological investigations of the isolated compounds. In addition, the impact of the culture conditions on growth and on biosynthesis of bioactive compounds was also studied. Besides, selective cyanobacteria were axenized and the taxonomy as well as the genetic relationship of axenic cyanobacteria that produced bioactive compounds with some other cyanobacteria was identified basing on the 16S rRNA gene sequences. 22 Vietnamese and 6 German cyanobacterial strains were screened for their antifungal activity using the agar diffusion assay. Among them, the MeOH/water extract from the biomass obtained from a laboratory culture of strain Bio 33, isolated from the Baltic Sea near Rügen Island, exhibited a specific antifungal activity against Candida maltosa and others human pathogenous fungi such as Candida albicans, Candida krusei, Aspergillus fumigatus, Microsporum gypseum, Trichophyton rubrum and Mucor sp. Besides, it was very impressed that extracts of strain Bio 33 showed no antibacterial activity against Escherichia coli, Pseudomonas aeruginosa, Bacillus subtilis, and Staphylococcus aureus. The taxonomy basing on 16S rRNA gene sequence of the axenic Bio 33 identified this strain as Anabaena cylindrica species. As a result of the bioassay-guided fractionation of the crude MeOH/water extract, four new lipopeptides, named balticidins A – D, were isolated. These lipopeptides represent a new structural type with the co-occurrence of a glycosylated cyclic peptide, a fatty acid containing chlorine and a disaccharide moiety. The main active fraction isolated from the MeOH/water extract of the biomass of Bio 33 which contains the four lipopeptides exhibited only marginal cytotoxic activity against the human bladder carcinoma cell line 5637 (IC50 = 93 μg/ml). The weak cytotoxic activity and the absence of antibacterial effects in the used in vitro test systems opens a promising future for further investigations to clarify the antifungal mechanism and for in vivo applications of the new lipopeptides. Different media, temperature, light intensity and period of irradiance, the depletion of nitrate and the trace element cobalt were investigated to figure out conditions at which Bio 33 produces maximum of balticidins under laboratory conditions. Temperature was the most apparent factor influencing the growth of Bio 33 and the production of balticidins. Bio 33 grew best in BG 11 medium plus 0.5% NaCl at 26°C, under white fluorescent continuous light and a light intensity of 20 μmol photons m-2 s-1. Nevertheless, under the same conditions, 22.5°C was the best temperature for the production of balticidins. Besides, harvesting of Bio 33 during the logarithmic growth phase, particularly at 20th day, should supply approximately maximum quantity of balticidins. At 22.5°C and 20 μmol photons m-2 s-1 under 24 h continuous irradiance, the depletion of nitrate had no negative effect on the growth and concentration of balticidin A but increased balticidin B and decreased balticidin C; the absence of cobalt slightly decreased the growth but had no clear effect on the production of balticidins. On the other hand, extracts of the culture medium of the Vietnamese cyanobacterium TVN40, exhibited antifungal activity against Candida maltosa and weak antibacterial activity. Extraction of the culture medium with XAD-16 and elution of the XAD-bounded compounds by different solvents resulted in five fractions (water, 80% MeOH, 100% MeOH, acetone, dichloromethan). Four compounds have been isolated from the 80% MeOH fraction and one was identified as a dioxindole derivative. Structural elucidation of the other three compounds is still in progress. TVN40 was formerly identified as an Anabaena sp. according to the morphological properties, but the 16S rRNA gene sequence confirms that the strain belongs to the genus Nostoc. Microscopic examination of TVN40 revealed that the filamentous strain was not a unialgal but a mixed culture with strange round cells (SRCs) - a unicellular cyanobacterium belonging to the order Chroococcales. Laboratory cultures of the pure filamentous strain TVN40, the isolated SRCs and the mixed culture of both strains were established. Both TVN40 and SRC culture media were responsible for the antibacterial activity against B. subtilis, S. aureus and E. coli. However, only the extract of the culture medium of TVN40 was active against C. maltosa. The supplement of cobalt enhanced the antimicrobial activity of the culture medium. Pure strains showed higher activity in comparison to the mixed culture of TVN40 and SRC.
Oral drug delivery is the preferred route of administration for the majority of drugs. Solid dosage forms arewell-accepted because of ease of administration, accurate dosing and high degree of patient compliance. The orodispersible technology platform has attracted increasing interest. Fast disintegrating in the mouth before swallowing, orodispersible dosage forms like orodispersible tablets (ODTs) address the need for patient-compliant medicines. ODTs represent a convenient alternative to conventional tablets or capsules. ODTs are an interesting approach when a rapid onset of therapeutic action is important. So far, ODTs have often been considered as an innovative variant of conventional oral solid dosage forms. Still, the development of ODT formulations is typically assisted by compendial in vitro test methods. However, the techniques described in international pharmacopoeias are non-specific for ODTs. After administration, the dispersion of an ODT in the mouth may provide effects which might influence the absorption of the drug. The performance of ODTs is more comparable to solutions/suspensions than to traditional tablets. To better guide the development of a new ODT formulation, this lack needs to be addressed. It is the aim of this work to design more specific in vitro test methods helping to improve understanding ODT formulations. To reflect the physiological conditions experienced by an ODT after administration, particular attention was given to the mouth where the ODT disperses and releases the drug before swallowing. In vitro biorelevant test setups simulating in vivo conditions were designed. An electronic tongue system was used to assess taste properties of ODTs. These test methods were applied in different stages of the ODT formulation development. Diclofenac being a poorly soluble and weakly acidic NSAID which is a standard medication for acute painful inflammatory conditions was used as a drug model. Three forms, i.e. the free acid and its sodium/potassium salt, were investigated for the formulation of palatable and fast acting ODTs. In Chapter 1, the development of biorelevant test setup reflecting the physiological conditions experienced by ODTs is described in detail. The newly-designed in vitro models successfully discriminated the different diclofenac forms in successive in vitro compartments simulating the mouth, the stomach and the small intestine. It was possible to identify peculiar dissolution profiles with diclofenac salts. Characterizing in-depth the diclofenac free acid and salt particles provided a better understanding of the peculiar dissolution profiles. Critical behaviors of diclofenac salts on their way from the mouth to the stomach and passing different pH conditions were extensively evaluated. Reasons for pH-dependent API precipitation and particle agglomeration were studied in detail. In pre-formulation studies, the proposed biorelevant test setups succeeded in helping to early identify critical pharmaceutical properties for diclofenac salts and to select diclofenac free acid as the most appropriate drug form providing the most stable in vitro performance. In Chapter 2, the electronic tongue method as an in vitro taste assessment tool for ODTs is proposed. Using the TS-5000Z taste sensing system (Insent Inc., Japan), the method was able to differentiate between the taste/aftertaste qualities and intensities of the three diclofenac candidates. The electronic tongue was also successfully used to differentiate different ODT formulations. The results obtained proved that valuable information can be gained. By this means, the taste perception of the diclofenac drug candidates were classified and rank against each other. For manufacturing taste-masked ODTs, diclofenac free acid, could be selected easily. The electronic tongue found out to be a precious tool in assisting the development of a new ODT product and finding the most appropriate multi-component formulation. Both proposed methods successfully showed their discriminative ability and also their utility in pre-formulation studies of ODTs. In the previous chapters, it was indeed possible to early select diclofenac free acid as the most suitable drug candidate for the targeted product profile. In Chapter 3, said methods were further used to guide the development of the taste masked diclofenac ODT formulation. This study highlights the importance of considering in vitro the physiological aspects which may have an impact on the in vivo performance of ODT dosage forms. The contact of ODTs with the mouth should be simulated in vitro for a better understanding of the in vivo behavior. With feasible biorelevant in vitro dissolution methods, an optimized correlation of in vitro and in vivo results may be achieved. The proposed in vitro test methods may provide data of predictive value and may support the rational development of ODT formulations.
Within this thesis the protein engineering, immobilization and application of enzymes in organic synthesis were studied in order to enhance the productivity of diverse biotransformations. Article I is a review about Baeyer-Villiger monooxygenases (BVMO) and provides a detailed overview of the most recent advantages in the application of that enzyme class in biocatalysis. Protein engineering of a former uncharacterized polyol-dehydrogenase (PDH) identified in the mesothermophilic bacterium Deinococcus geothermalis 11300 is described in Article II. Article III covers the combination of one PDH mutant with a BVMO in a closed-loop cascade reaction, thus enabling direct oxidation of cyclohexanol to ε-caprolactone with an internal cofactor recycling of NADP(H). Article IV and Article V report a process optimization for transamination reactions due to a newly developed immobilization protocol for five (S)- and (R)-selective aminotransferases (ATA) on chitosan support. Furthermore, the immobilized ATAs were applied in asymmetric amine synthesis. In Article VI, an ATA immobilized on chitosan, an encapsulated BVMO whole cell catalyst and a commercially available immobilized lipase were applied in a traditional fixed-bed (FBR) or stirred-tank reactor (STR), and were compared to a novel reactor design (SpinChem, SCR) for heterogeneous biocatalysis.
The present thesis deals with dynamic structures that form during the expansion of plasma into an environment of much lower plasma density. The electron expansion, driven by their pressure, occurs on a much faster time scale than the ion expansion, owed to their mobility. The high inertia of the ions causes the generation of an ambipolar electric field that decelerates the escaping electrons while accelerating the ions. The ambipolar boundary propagates outwards and forms a plasma density front. For a small density differences, the propagation of the front can be described with the linear ansatz for ion acoustic waves. For a large density differences, experiments have shown that the propagation velocity of such a front is still related to the ion sound velocity. However, the reported proportionality factors are scattered over a wide range of values, depending on the considered initial and boundary conditions. In this thesis, the dynamics during plasma expansion are studied with the use of experiments and a versatile particle-in-cell simulation. The experimental investigations are performed in the linear helicon device Piglet. The experiment features a fast valve, which is used to shape the neutral gas density profile. During the pulsed rf-discharges, plasma is generated in the source region and expands collisionless into the expansion chamber. The computer simulation is tailored very close to the experiment and provides a deeper insight in the particle kinetics. The experimental results show the existence of a propagating ion front. Its velocity is typically supersonic and depends on the density ratio of the two plasmas. The ion front features a strong electric field. The front can have similar properties to a double layer is not necessarily a double layer by definition. The computer simulation reveals that the propagating electric field repels the downstream ambient ions. These ions form a stream with velocities up to twice as high as the front velocity. The observed ion density peak is due to the accumulation of the repelled ions and is located at their turning point. The ion front formation depends strongly on the initial ion density profile and is part of a wave-breaking phenomenon. The observed front is followed by a plateau of little plasma density variation. This could be confirmed for the expansion experiment by a comparison with virtual diagnostics in the computer simulation. The plateau has a plasma density determined by the ratio between the high and low plasma density. It consists of streaming ions that have been accelerated in the edge of the main plasma. The presented results confirm and extend findings obtained by independent numerical models and simulations.
The laser-matter interaction is a topic of current research. In this context, the interaction of intensive laser radiation with atomic clusters is of special interest. Du to the small cluster size, the laser field can penetrate the whole cluster volume, which leads to a high absorption of energy in the cluster. As a result, plasmas with high density and high temperature are produced. In the early phase of the laser-cluster interaction, free electrons are initially created in the cluster due to tunnel ionization or photoionization. Via collisions of these electrons with the cluster atoms, the ionization is increased and thus a dense nanoplasma is produced, which is heated by the laser. If free electrons leave the cluster during the laser-cluster interaction (outer ionization), a positive charge buildup is created. The associated charge repulsion finally can lead to the fragmentation of the cluster due to Coulomb explosion. Experimentally, interesting phenomena emerging from laser-excited clusters are observed, e.g., the creation of fast electrons, the production of highly charged ions, and X-ray emission. In this dissertation, the interaction of Gaussian laser pulses in the infrared regime with argon and xenon clusters is simulated by means of a nanoplasma model. Considering laser intensities in the non-relativistic regime, the relevant processes such as ionization, heating and expansion are theoretically described in this model with a set of coupled rate equations and hydrodynamic equations. One focus of the thesis is on the heating of the nanoplasma via inverse bremsstrahlung (IB), which is due to the absorption of laser photons in electron-ion collisions. In particular, the important question is investigated whether the consideration of the ionic structure – that means, the nuclear charge and the bound electrons – modifies the electron-ion collisions and thus the IB heating rate. Starting from a quantum statistical description, effective electron-ion potentials are used which account for both the screening due to the dense plasma and the inner ionic structure. Within the quantum mechanical first Born approximation, the consideration of the ionic structure leads to a drastic increase of the IB heating rate, in particular for high nuclear charges and low ionic charge states. However, for the parameters relevant in experiments, the applicability of the first Born approximation is questionable. Therefore, quantum mechanical calculations going beyond the first-order perturbation theory are performed. In addition, the IB heating rate is investigated with different classical methods. These are based either on transport cross sections for elastic electron-ion scattering or on classical simulations of inelastic scattering processes. Also within the classical approaches, the consideration of the ionic structure leads to an increase of the heating rate. However, this increase is shown to be only moderate. In a further part, the thesis focuses on the question how the dynamics of the laser-cluster interaction is influenced by the consideration of excited states. This is explored exemplarily for argon clusters excited by single or double laser pulses. The consideration of excitation processes in the nanoplasma leads to a decrease of the electron temperature and to an increase of the density of free electrons. Moreover, it is shown that the consideration of excitation processes results in an essential acceleration of the ionization dynamics. As a consequence, the mean ionic charge state in the plasma as well as the number of highly charged ions is significantly increased. For the population of ground states and excited states within an ionic charge state Z, collisional deexcitation processes play an important role. By means of an analytical relation between excitation and deexcitation cross sections, the rates for the respective processes in the presence of the laser field are calculated. The role of deexcitation processes is studied in detail, showing that the inclusion of these processes is essential for the correct theoretical description of the photon emission from laser-excited clusters. Based on these results, the photon yield is calculated for selected radiative transitions resulting from highly charged argon ions in the UV and X-ray regime.
Non-healing wounds pose a major burden to patients and health care systems alike. These wounds are chronically stuck in the inflammatory phase of the healing process without transitioning to the proliferative phase. They are also characterized by the excessive presence of leukocytes which are assumed to provoke the persistent inflammation observed in pathological wound healing. Recent studies suggested a beneficial role of cold physical plasma in the treatment of chronic wounds. Hence, it was the central question, whether exposure to cold physical plasma would affect the viability and/or function of human leukocytes. Cold plasma displays various properties of which the generation of reactive molecules, such as reactive oxygen and nitrogen species (ROS/RNS), where found to be central in mediating redox changes in leukocytes. Oxidative stress was present especially in lymphocytes that readily underwent apoptosis after exposure to plasma. This was largely a direct consequence of plasma-generated hydrogen peroxide but not superoxide or RNS. Amount of apoptosis was comparable among several lymphocyte subpopulations, with the wound healing-relevant γδ T cells being least affected. Lymphocyte apoptosis was accompanied by mitochondrial membrane depolarization, caspase 3 activation, DNA fragmentation, and phosphatidylserine exposure. These results are in line with previous characterizations of the intrinsic apoptotic pathway in redox biology, and suggest that plasma-induced apoptosis was not mediated by alternative molecular mechanisms. An important immune response mechanism, the proliferation of lymphocytes, was not interrupted in plasma-treated but non-apoptotic cells. In wounds, a central role of leukocytes is to orchestrate the healing response via the release of small communication molecules called cytokines. Non-healing wounds are associated with elevated amounts of pro-inflammatory IL-1β, IL-6, and TNFα, and plasma-treatment of leukocytes strongly decreased their concentrations. At the same time, the expression of anti inflammatory cytokines (IL-10, TGFβ) was markedly increased. The pro inflammatory chemokine IL-8 was the only molecule to be significantly increased in supernatants of plasma-treated cells. IL-8 is the major chemo-attractant for neutrophil granulocytes. Neutrophils are frequently associated with non-healing wounds. These professional phagocytes are the first to migrate to the site of injury where they inactivate invading pathogens by various mechanisms. Importantly, highly relevant effector functions remained mostly unaffected by plasma treatment: the phagocytosis of bacteria, the oxidative burst, and the intracellular killing of microbes. Of note, plasma induced a strong induction of neutrophil extracellular traps (NETs). Decorated with antimicrobial proteins, NETs are web-like chromatin extrusions that entrap pathogens. These results have several implications for wound healing. Plasma-treated neutrophils were still capable of eradicating bacteria, which are frequently associated with non-healing wounds. In addition, plasma-induced NETs could aid in wound healing by providing an antibacterial scaffold to safeguard against further dissemination of microorganisms. Chronic wounds display a state of sustained inflammation and plasma induced apoptosis but not necrosis in lymphocytes. This was an important finding as necrosis, the involuntary cell death, is associated with the release of intracellular content, enhancing inflammation. By contrast, apoptosis dampens it as dead cells are cleared by macrophages inducing anti inflammatory responses. Further, the cytokine signature of plasma-treated leukocytes was largely non inflammatory, which could further decrease inflammation in wounds. Altogether, this work provided first insight with regard to effects and mechanisms of cold physical plasma treatment of wound-relevant leukocytes. Generally, these cells were affected by a plasma mediated modulation of their redox state. Future studies should include the possibility of redox modulation into their experimental approach to further elucidate the role of ROS/RNS in inflammation and possibly to improve existing wound healing therapies.
In summary, the transcriptome data demonstrated that acute RAP for 7h induces significant changes in the expression of several left atrial genes, including those reflecting ANG II-mediated oxidative stress, tissue remodeling, and energy depletion. Furthermore, the results from the dronedarone study demonstrated that this drug is capable of attenuating most of RAP-induced changes in oxidative stress-related gene expression. Accordingly, the haemodynamic parameters also showed that dronedarone reduced RAP-induced microvascular flow abnormalities. This view is supported by the observation that in the used porcine model of acute AF, dronedarone decreased RAP-dependent PKC phosphorylation, NADPH isoform expression, F2-isoprostane release and IκBα phosphorylation. Additionally, the results of the irbesartan study indicate that ET-1 contributes to AF-dependent atrial fibrosis by synergistic activity with ANG-II to stimulate SGK1 expression and enhance phosphorylation of the SGK1 protein which, in turn, induces CTGF. The latter has been consistently associated with tissue fibrosis. In support of this view, in vitro analyses using HL-1 cells verified CTGF induction after short episodes of RAP and additionally in response to exogenous addition of ET-1. Accordingly, irbesartan was shown to attenuate most of the RAP-dependent changes in atrial or ventricular gene expression.
In this thesis we have revisited the formation of the excitonic insulator (EI), which realizes an exciton condensate. In contrast to optically created exciton condensates, the EI forms in thermal equilibrium and is solely driven by the Coulomb attraction between electrons and holes. The EI phase is anticipated to occur near the semimetal-semiconductor (SM-SC) transition at low temperatures. Depending from which side the EI is approached, it forms due to a BCS-type condensation of electron-hole pairs or a Bose-Einstein condensation (BEC) of excitons. The extended Falicov-Kimball model (EFKM) is the minimal model the EI can be described with. This model describes spinless fermions in two dispersive bands (f band and c band), that interact via a local Coulomb repulsion. The EFKM is also used to describe electronic ferroelectricity (EFE). Both phases, the EI and EFE-type ordering, are characterized by a spontaneous f-c hybridization in the EFKM. We have presented the EI phase, the EFE phase, and the orderings they compete with. Moreover, we have determined the ground-state phase diagram of the EFKM. We have focused particularly on the anticipated BCS-BEC crossover within the EI and have analyzed the formation scenarios. The exciton spectrum and the exciton density in the normal phase close to the critical temperature give information about relevant particles and therefore the nature of the transition. We have demonstrated that the whole EI is surrounded by a halo", that is, a phase composed of electrons, holes and excitons. However, on the SM side, only excitons with a finite momentum exist. These excitons appear only in a small number and barely influence the SM-EI transition. This phase transition is driven by critical electron-hole fluctuations, generated by electrons and holes at the Fermi surface. On the SC side, excitons with arbitrary momenta exist. Most notably, we have found the number of zero-momentum excitons to diverge at the SC-EI transition, signaling the BEC of these particles. Within the EI phase, there is a smooth crossover from the BCS regime to the BEC regime. One of the promising candidates to observe the EI experimentally, is the transition-metal dichalcogenide 1T-TiSe2. Strong evidences were found favoring an EI scenario of the charge-density-wave (CDW) formation in this material. However, some aspects point to a lattice instability to drive the CDW transition. We have addressed this issue by analyzing the recently discovered chiral property of the CDW in 1T-TiSe2. We have found that the EI scenario is insufficient to explain a stable, long range chiral charge ordering. Lattice degrees of freedom must be taken into account. In particular, nonlinear electron-phonon coupling and phonon-phonon interaction are crucial. By estimating appropriate model parameters for 1T-TiSe2, we have suggested a combination of excitonic and lattice instability to drive the CDW transition in this material. Experiments in 1T-TiSe2 and other materials suggest that the coupling to the lattice is non-negligible. We have extended therefore the model by an explicit exciton-phonon interaction, and have analyzed crucial effects of this interaction. While the single-particle spectrum is not modified qualitatively, the electron-hole pair spectrum changes significantly. The inclusion of the phonons lead to a massive collective mode in the ordered ground state in contrast to the case for vanishing exciton-phonon coupling, where the mode is acoustic. We have suggested that a gapless collective mode leads to off-diagonal long range order. This questions that the ground state for finite exciton-phonon coupling represents a condensate.
During the past decade, various physical properties of the Yukawa ball, like structure and energy states, were unraveled using experiments. However, the dynamical features served further attention. Therefore, the main aim of my thesis was to investigate and understand how a finite system-represented by Yukawa clusters-evolves from a solid, crystalline structure to a liquid-like system, how it behaves in this phase and in what manner the reordering back into the solid state can be described. As a method of choice to reach this goal, laser heating has been proven successful. Moreover, the special importance of wakefields for dust clusters confined at low neutral gas pressure was addressed. Melting of finite dust clouds can be induced in two ways, either by altering the properties of the ambient plasma or by laser heating. The latter was shown to be a generic melting scenario, allowing to estimate a critical coupling parameter at the melting point. Moreover, the melting transition of finite 3D dust systems was found to be a two-step process where angular order is lost before the radial order starts to diminish at higher energies. Next, the mode dynamics of finite 3D dust ensembles in the solid and the liquid phase was studied. Crystal and fluid modes revealed the main spectral properties of the system. The normal modes are mainly suited to describe crystalline states. Fluid modes were excited naturally and via laser heating, with excitation frequencies almost independent of the coupling parameter in the solid and the liquid-like regime. Tuning the plasma parameters can be used to vary the particle-particle interaction via the ion focus. Both methods, even though assuming equilibrium situations, allowed to hint at these wakefields. The corresponding peaks in the fluid and normal mode spectra were no eigenmodes, confirming the nonequilibrium character of the ion focusing effect. First steps to extend the normal mode theory to achieve the dynamics of wake-affected nonequilibrium dust clusters were presented. Statistical quantities were obtained evaluating long-run experiments and transport coeffcients for finite dust systems were calculated via the instantaneous normal mode technique. Diffusion was found considerably higher for 3D than for 2D dust clusters. Using the configurational entropy, we have shown that in 2D and 3D disorder increases with increasing size of the system, in agreement with simulations. The temperature dependence of the configurational entropy differs for 2D and 3D dust clouds, with a threshold behavior found for finite 2D ensembles only. Finally, using instantaneous normal modes to reveal the total fraction of unstable modes, the predictive connection of Keyes (Phys Rev E 62, p7905, 2000), between transport and disorder was tested and verified for 2D, but not for 3D clusters. The reason for this has to be left open. Finally, laser-mediated recrystallization processes of finite 3D dust clouds were investigated. First, the temporal evolution of the Coulomb coupling parameter was traced during heating and recrystallization. A cooling rate has been determined from the initial phase of recrystallization. This cooling rate is lower than damping by the neutral gas, in agreement with simulations. We have observed a large fraction of metastable states for the final cluster configurations. Further, we have revealed that the time scale for the correlation buildup in the finite 3D ensemble was on even slower scales than cooling. Thus, different time scales can be attributed to the fast emergence of the shells and to the slower individual ordering within the shells.
The central aim of this thesis was the investigation of protein/polyanion interaction using circular dichroism (CD) spectroscopy, enzyme immune assay (EIA), isothermal titration calorimetry (ITC) and flow cytometry (FC). A further aim was to understand why an endogenous protein becomes immuno-genic when forming a complex. The focus was on the protein platelet factor (PF4), which gained wide interest in the clinical field, due to its role in the life-threatening, immune-driven, adverse drug effect heparin-induced thrombocytopenia (HIT). PF4 is a small homotetrameric chemokine with several basic amino acids on its surface, forming a positively charged ring. The antibodies that are formed during HIT recognize an epitope exposed on PF4, when it is in a complex with heparin at a certain molar ratio at which, PF4 tetramers are aligned on the heparin and forced into close approximation. The main results and conclusions of the thesis are summarized below: 5.1 Evolutionary Conservation of PF4 (Paper I – PF4/Evolution) By carrying out an amino acid sequence survey we found that the positively charged amino acids contributing to the heparin binding site on the surface of PF4 and related proteins are highly conserved in all vertebrates, including fish species. PF4 interacts with the phospholipid lipid A, the innermost part of the lipopolysaccharide (LPS) of Gram negative bacteria. We showed that the shorter the sugar chain of the O antigen, outer and inner core of the LPS were the more PF4 was binding. The interaction of PF4 with lipid A is inhibited by heparin, suggesting that the amino acids known to contribute to heparin binding are also involved in binding to lipid A. 5.2 PF4 Interaction with Polyanions (PA) of varying Length and Degree of Sulfation (Paper II – PF4/PA) CD spectroscopy was found to be a powerful technique to monitor structural changes of PF4 caused by binding to various clinically relevant polyanions. Therefore PF4 was titrated with different PA to investigate the dependencies: i. impact of the PF4:PA molar ratio, ii. degree of polymerization of the PA and iii. degree of sulfation of the PA. In all cases, exposure of HIT-relevant epitope(s) was only observed for PA that also induced changes in secondary structure of PF4. A comparison of results of an immune ¬assay with CD spectroscopic data showed that the extent of complex anti¬genicity correlates well with the magnitude of changes in PF4 secondary structure, and that the structural changes of PF4 have to exceed a certain threshold to achieve PF4/PA complex antigenicity. These findings allowed us to calculate expectation intervals for complex antigenicity solely using CD spectroscopic data. To our knowledge, this was the first demonstration that the capability of drugs to induce antigenicity of PF4 can be assessed without the necessity of in vivo studies or the use of antibodies obtained from immunized patients specific for the antigens. The antigenicity of PF4 in complex is not restricted to negative charges originating from sulfate groups, PA with phosphate groups are also capable (binding to phospholipids). We investigated inorganic polyphosphates (polyP) with a chain length of 75 Pi and showed that the induced secondary structural changes are even higher compared to the changes induced by the different heparins and that the PF4/P75 complexes are antigenic as well. 5.3 PF4 Interaction with defined oligomeric Heparins (Paper III – PF4/defined Heparins) We tested highly purified, monodisperse heparins. In contrast to the clinically relevant but relatively undefined (high polydispersity index) glycosamino glycans reported in paper II (PF4/PA). The defined heparins induced higher secondary structural changes. Here we showed for the first time that strong conformational changes during PF4/PA complex formation are necessary but not sufficient for to the expression of the anti-PF4/heparin antibody binding site. Also, the size of the complexes is not the only prerequisite for anti-PF4/heparin antibody binding (tested by atomic force microscopy). By ITC we found that antigenicity is only induced if the PF4/PA complex has a high binding enthalpy and the complex formation leads to a negative change in entropy. 5.4 PF4/Polyphosphates (polyP) Complex Antigenicity and Interaction with Escherichia coli (E. coli, Paper IV – PF4/polyP) PolyP with chain lengths of 45 Pi and 75 Pi induced remarkable secondary structural changes in the PF4 molecule, thereby exposing the epitope recognized by anti-PF4/heparin antibodies. The induced conformational changes were similar to the changes induced by the defined heparins. Again a high binding enthalpy was observed but here in connection with a positive change in entropy. Further we showed that polyP (≥45 Pi) enhance PF4 binding to the surface of Gram negative E. coli at intermediate concentration and disrupt the binding at elevated polyP concentrations. The increased amounts of PF4 on the bacterial surface also improved the binding of anti-PF4/heparin antibodies and thereby the phagocytosis of the bacteria by poly¬morpho¬nuclear leucocytes. 5.5 Nucleic acid based Aptamers induce structural Changes in the PF4 Molecule (Paper V – PF4/Aptamer) Nucleic acids are another class of molecules containing phosphate groups. Especially after cell damage their extra¬cellular concentration can be locally quite high (>2 mg/ml). We found that certain aptamers form complexes with PF4 and thereby inducing anti-PF4/aptamer antibodies which cross-react with PF4/heparin complexes. Moreover by CD spectroscopy we showed that the protein C-aptamer caused similar secondary structural changes of PF4 like heparin, but already at much lower concentration. The maximally induced changes by the protein-C aptamer were even higher and persisted over a broader concentration range. 5.6 Protamine Interaction with Heparin (Paper VI – PS/Heparin) After the intensive investigation of the complex formation between PF4 and many different classes of PA we assessed another protein for structural changes upon complex formation with heparin. Protamine (PS) a protein in routinely used in post-cardiac surgery to reverse the anticoagulant effects of heparin was found to unfold but not to refold with increasing concentration of PA in solution. 5.7 Conclusion and Outlook When starting this thesis, it was believed that repetitive structures formed by PF4 on a heparin chain mold the epitope recognized by antibodies inducing HIT. These repetitive structures might exhibit similarities with viral capsids and are therefore recognized by the immune system of some patients. We found that induced by the close approximation PF4 changes its conformation, thereby exposing a neoepitope. The conserved positively charged amino acids of the heparin binding site and the involvement of these amino acids in the binding to lipid A confirm our hypothesis of PF4 as part of an ancient immune-mediated host defense mechanism. As possible consequence of the “primitive mechanism of defense” the highly variable O-antigens of LPS might have significantly contributed to an efficient escape mechanism by hiding the structures that made the bacteria vulnerable. In turn polyP might be an adaption of the host improve pathogen recognition by PF4 and further by antibodies inducing phagocytosis of the PF4-marked objects. Although shown only for PF4 and PS, our findings might be applicable to other proteins that also express epitopes upon changes in their secondary structure. Our physicochemical methods may further be applied: i. to drug development for the prediction of antigenicity induced by polyanionic drugs, ii. to guide the development of synthetic heparins and other polyanion based drugs, e.g. aptamers, that do not lead to HIT and iii. to provide relevant aspects for other biological functions of heparins.
The extraction of raw materials in mining, as for example copper, generally requires a separation of the natural resources quarried. In most cases complex ores, mixtures of different minerals and gangue have to be separated in order to enable an economic processing. In particular for the extraction of sulfides, oxides, carbonates, phosphates, but also of coal, froth flotation is mainly used for this purpose, therefore it is considered as the most important separation process in raw material industries. Several billion tons of ores are processed annually. The principle of flotation is based on the surface properties of the mixtures components and the separation efficiency, which decisively determines the required amount of water and various chemicals, if nothing else, is an important criterion in mineral exploration and it also significantly influences the environmental impact of mineral processing. The aim of, this work was to investigate the influence, of, low-temperature plasmas on the mineral surface and, based on the acquired knowledge, to develop and verify strategies that would increase the efficiency of flotation processes through plasma pre-treatment of mineral mixtures. Since these studies are unprecedented, the results presented can be classified as a contribution to application-oriented basic research. Powder of the sulfide minerals, pyrite (FeS2), chalcopyrite (CuFeS2), chalcocite (Cu2S) and molybdenum sulfide (MoS2), were treated with plasmas of a radiofrequency and a microwave discharge and the resulting surface modifications were investigated by structure analysis such as X-ray photoelectron spectroscopy (XPS) and X-ray diffraction (XRD). During the plasma process, the argon/oxygen and argon/hydrogen process gas mixtures used were analyzed by mass spectrometry (MS), taking into account the quantity of gaseous reaction products released, in order to estimate the rate at which chemical reactions occur. Furthermore, Langmuir and thermal probes, as well as different methods of optical emission spectrometry (OES) were utilized, which enabled a characterization of the discharges used with regard to different plasma parameters. It has been shown that sulfur dioxide (SO2) in Ar/O2 plasmas and hydrogen sulfide (H2S) in Ar/H2 plasmas are the only reaction products which can be detected by MS during the mineral treatments. Thus, the resulting sulfur rate loss could be time-resolved determined by means of additional calibrations with calibrating gases. Especially at Ar/O2-MW plasma treatments two fundamental mechanisms of mineral modification could be separated by time. Pure plasma-surface interactions at the beginning and, additionally, thermally induced reactions in during the evolution of the treatments. Comparisons regarding the relative sulfur loss during plasma-surface interactions between the investigated minerals have shown a strong influence of the process parameters whereas, under identical conditions, CuFeS2 reacted up to eight and nineteen times faster reacted than FeS2 or Cu2S. This result represents the basis of the strategy to optimize the flotation of the minerals investigated: The selective generation of oxides on the surface of one component in a mixture of sulphide minerals. In particular, at the separation of CuFeS2/FeS2 mixtures by using the oxide collectors Flotinor Fs-2 in a micro flotation cell, a high selectivity could be achieved. The recovery of CuFeS2 amounted to 100 % while less than 10 % of FeS2 was recovered and no other modifying reagents were used. XPS and XRD analyses indicate the possibility that metal oxide are created upon the CuFeS2 surface, while the formation of iron sulfates upon the FeS2 surface prevented the oxide collector adsorption. An increased intensity of the plasma treatment leads to an increased sulphate formation also on CuFeS2, whereas the recovery, and thus the selectivity of the flotation, was reduced again. It could be shown that this effect can be utilized for the separation of, CuFeS2/MoS2 mixtures by using both, oxide and sulfide collectors, because sulfates are not formed on molybdenum sulfide during Ar/O2 plasmas treatments. By means of the plasma diagnostics used the energy input onto the substrate, the gas temperature and the degree of dissociation of molecular gases were estimated and correlations regarding the surface modification have been worked out. Thereby, the region investigated within the parameter space could be enlarged due to the use of different excitation frequencies, 13.56 MHz and 2.45 GHz, and additional insights have been provided. Further studies, beyond the scope of this work, are, nevertheless, required in order to generate a more comprehensive picture of plasma-mineral interactions and to enable an optimal application of the obtained results.
The systemic renin-angiotensin system (RAS) is an endocrine system that is mainly known to regulate blood pressure, fluid and electrolyte balance as well as volume homeostasis in the body through different active metabolites, the angiotensin (Ang) peptides. In addition, local renin-angiotensin systems have been discovered in various tissues, including the islet of Langerhans. Starting with angiotensinogen, the precursor of all angiotensin peptides which is cleaved into the decapeptide Ang I by renin, the RAS is divided into three axes. The main classical RAS axis is composed of angiotensin converting enzyme (ACE), angiotensin (Ang) II, and the Ang II type 1 receptor (AT1R), whereas the two alternative RAS axes comprise either ACE2, Ang-(1-7) and the receptor Mas or the aminopeptidase N (APN), Ang IV and the insulin-regulated aminopeptidase (IRAP). The activation of the main ACE/Ang II/AT1R RAS axis has been associated with metabolic syndrome, type 2 diabetes mellitus, and islet dysfunction. The detrimental effects resulting from the pathological activation of this axis have been shown to be attenuated or even abolished by the pharmacological inhibition of components of the main RAS axis. However, the impact of the two alternative ACE2/Ang-(1-7)/Mas and APN/Ang IV/IRAP RAS axes on islet function is less well understood. Previous studies mainly focused on the possible protective actions of Ang-(1-7) via the receptor Mas in insulin-sensitive tissues and on well known risk factors of metabolic syndrome (insulin resistance, hyperglycemia, obesity, hypertension and dyslipidemia). Thus, the impact of this axis on β-cell function and, in particular, insulin production and release was examined in the present study. Glucose and fatty acids have been subjects of diabetic research because they are established pathophysiologically relevant features of the metabolic syndrome and are known to harm β cells, phenomena which are referred to as gluco- or lipotoxicity, respectively. The pathophysiologically relevant factors glucose, saturated fatty acid (FA) palmitic acid (PA), and the methyl ester of the omega-3 fatty acid docosahexaenoic acid (DHA-ME) were used in the present study to characterize the local β-cell RAS as well as β-cell function under pathophysiological conditions. Results of the present work demonstrate the expression of selected components of the RAS in isolated murine islets of Langerhans and the rat insulinoma cell line BRIN-BD11 under basal conditions. The alternative ACE2/Ang-(1-7)/Mas and APN/Ang IV/IRAP RAS axes were activated by high glucose in BRIN-BD11 cells after 24 h. Coincidently with these findings insulin production was found to be increased. In contrast, the expression of components of the main ACE/Ang II/AT1R RAS axis and the Ang II type 2 receptor (AT2R) were not affected under the same conditions (Härdtner et al., 2013). Both FAs, PA and DHA-ME were shown to alter the expression of components of the renin-angiotensin system in BRIN-BD11 cells. PA increased the expression of AT1R, the receptor of the main RAS axis, and of AT2R, whereas that of the receptor of the alternative ACE2/Ang-(1-7)/Mas RAS axis, Mas, appeared to be down-regulated at basal low glucose concentrations (5.5 mM). These effects were accompanied by a dose-dependent reduction of the insulin production and secretion. In contrast, DHA-ME augmented the expression of components of the ACE2/Ang-(1-7)/Mas axis and IRAP at low glucose concentrations, an effect which could be partially enhanced under high glucose conditions (25 mM). At basal glucose concentrations DHA-ME reduced the insulin secretion, whereas it was increased under high glucose conditions. However, the insulin mRNA amount remained unaffected by DHA-ME. Additionally, in contrast to glucose and palmitic acid, DHA-ME significantly increased the production of reactive oxygen species, at least hydrogen peroxide after 30 min. Expression alterations of components of the alternative ACE2/Ang-(1-7)/Mas RAS axis by glucose and PA correlated strongly with the corresponding insulin secretion and production. Therefore, an involvement of the ACE2/Ang-(1-7)/Mas RAS axis in the regulation of insulin secretion and production was hypothesized and validated in primary islets of Langerhans of both Mas-deficient and wild-type mice. Islets were exposed to the preferred natural ligand for Mas, Ang-(1-7), or to its pharmacological agonists or antagonists, respectively....
Magnetic reconnection is a fundamental plasma process where a change in field line connectivity occurs in a current sheet at the boundary between regions of opposing magnetic fields. In this process, energy stored in the magnetic field is converted into kinetic and thermal energy, which provides a source of plasma heating and energetic particles. Magnetic reconnection plays a key role in many space and laboratory plasma phenomena, e.g. solar flares, Earth’s magnetopause dynamics and instabilities in tokamaks. A new linear device (VINETAII) has been designed for the study of the fundamental physical processes involved in magnetic reconnection. The plasma parameters are such that magnetic reconnection occurs in a collision-dominated regime. A plasma gun creates a localized current sheet, and magnetic reconnection is driven by modulating the plasma current and the magnetic field structure. The plasma current is shown to flow in response to a combination of an externally induced electric field and electrostatic fields in the plasma, and is highly affected by axial sheath boundary conditions. Further, the current is changed by an additional axial magnetic field (guide field), and the current sheet geometry was demonstrated to be set by a combination of magnetic mapping and cross-field plasma diffusion. With increasing distance from the plasma gun, magnetic mapping results in an increase of the current sheet length and a decrease of the width. The control parameter is the ratio of the guide field to the reconnection magnetic field strength. Cross-field plasma diffusion leads to a radial expansion of the current sheet at low guide fields. Plasma currents are also observed in the azimuthal plane and were found to originate from a combination of the field-aligned current component and the diamagnetic current generated by steep in-plane pressure gradients in combination with the guide field. The reconnection rate, defined via the inductive electric field, is shown to be directly linked to the time-derivative of the plasma current. The reconnection rate decreases with increasing ratio of the guide field to the reconnection magnetic field strength, which is attributed to the plasma current dependency on axial boundary conditions and the plasma gun discharge. The above outlined results offer insights into the complex interaction between magnetic fields, electric fields, and the localized current flows during reconnection.