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In 1992, the international regime 'Agenda 21' was agreed upon. Accordingly, countries worldwide have been undergoing reforms in their water management into Integrated Water Resources Management (IWRM). The implementation is promoted by international actors. The main institutional aspects of IWRM are the river basin approach, clear property rights allocation, and application of economical instruments. In former centrally planned economies, the process of IWRM implementation has been coincided with transformation for the market economy. The implementation of institutional aspects of IWRM in countries under transition is connected with high transaction costs. Against this background, the comparative empirical study was initialised in order to analyse institutional change of water management towards IWRM in Vietnam and in Poland. Two models of river basin organisations were examined. Consequently, pros and cons of decentralised polycentric and hierarchical unicentric river basin organisations have been evaluated. Formal institutions were studied with the use of an in-depth review of legislation in Vietnam and in Poland. The EU Water Frame Directive (EU WFD) and other international policies were also examined. For the empirical study in Vietnam and in Poland, actors were interviewed as experts. The results of the study on both countries were discussed separately, and conclusions were drawn in a comparative manner. Water management reforms towards IWRM in Vietnam and in Poland have been generating multi-level governance processes including international, national and sub-national levels. The implementation of IWRM in Vietnam is supported by international donor agencies. In Poland, the implementation of the EU WFD is coordinated by the European Commission in a hierarchical manner. In comparison to international joint-development projects in Vietnam, the European Commission enforces international IWRM policy more effectively. Since the resumption of ODA in early 1990s, water resources management has been institutionalised in Vietnam by international support. In 1998, a Water Law was established in Vietnam. The intended separation of water resources management from water service provisions caused fragmentation between the Ministry of Natural Resources and Environment, and the Ministry of Agriculture and Rural Development, respectively. This ‘silo-effect’ has been intensified by the competition for international ODA. The power struggles affect even agencies within ministries. Polycentric river basin committees have been established as entities subordinated to the Ministry of Agriculture and Rural Development, as well as the Ministry of Natural Resources and Environment. However, because of weak property rights allocation and the absence of administrative powers, the river basin organisations work ineffectively. The river basin has not yet been established as a sub-national area of political action. Decisions sustained to be made at central level and are affected by the information problem due to largely centralised organisations of Vietnamese water management. The sub-national level is characterised by very low planning and management capacities. In Poland, unicentric river basin organisations were established in 1991. They are aligned with hydrological borders. Water resources planning and management are carried out according to river basins and water regions in order to implement the EU WFD. The river basin has been established as a new area of decision-making. Conflicts between local-governments have been resolved after the reforms. Nevertheless, spatial management planning, environmental protection planning, water service delivery, etc., are further carried out by local self-governments. To integrate water resources planning and management with these services, horizontal coordination is of critical importance. However, this is hampered by problems of ‘spatial fit’. Moreover, a high degree of horizontal cross-border communication increases information problems in hierarchical organisations. Thus, features of polycentric governance models become increasingly important in order to fully implement the EU WFD in Poland.
Asymmetrical capacitively coupled RF discharges in oxygen, argon and hydrogen have been experimentally investigated with the innovative technique of the phase resolved optical emission spectroscopy. This diagnostic tool allows to measure spatio-temporally resolved emission intensities of electronically excited species with a high resolution. The spatial (axial) resolution was better than 1 mm and a temporal resolution of about 1.5 ns has been achieved. Therefore the plasma induced optical emission within the RF cycle (TRF = 73.75 ns) from the RF sheath region with a typical mean sheath thickness of about 5mm has been studied. Spatio-temporally resolved optical emission patterns of the following optical transitions have been measured for a total gas pressure in the range of 20 to 100 Pa and self-bias voltages between -50 and -550 V: Oxygen plasma Emission at 777.4 nm and 844.6 nm (atomic oxygen) Argon plasma Emission at about 751 nm and 841 nm (argon) Hydrogen plasma Emission at 656.3nm (atomic hydrogen, H alpha-line) These transitions are the most prominent ones of the investigated excited species in these plasmas as could be shown from overview spectra of the plasma induced optical emission in the range from 350 to 850 nm. For the first time such extensive PROES measurements in oxygen CCRF plasmas are presented in this work. The additional investigations of argon and hydrogen plasmas serve as a reference and for a direct comparison with results from the literature. The temporal behavior of the emission intensity is influenced by the effective lifetime of the emitting states which is on the order of the nanosecond time scale of the RF cycle. Therefore, it does not represent the real temporal behavior of the excitation. A simple method has been applied to calculate relative excitation rates from the measured emission intensities to distinguish different excitation mechanisms and their correct relative temporal behavior. In a close collaboration within the framework of the Sonderforschungsbereich Transregio 24 'Fundamentals of Complex Plasmas' a newly 1d3v PIC-MCC code for simulations of capacitive RF discharges in oxygen has been developed by Matyash et al. The very close coupling of experiment and modeling allowed a really detailed and microscopic understanding of the processes and dynamics from the sheath to the bulk plasma in CCRF discharges. The spatio-temporally resolved excitation rate profiles show four different excitation structures (I-IV). Excitation processes due to the following mechanisms in CCPs could be identified and characterized: I Electrons expelled from growing sheath II Electrons detached from negative ions (collisions with neutrals) + secondary electrons from the electrode surface (ion bombardment) III Field-reversal effect, reduced mobility of electrons (electron-neutral collisions) IV Heavy-particle collisions These excitation mechanisms are characterized by different temporal and spatial behaviors of the excitation rate within the RF cycle. Additionally it has been shown that the excitation by electron impact in the investigated oxygen plasmas results mainly from dissociative electron impact excitation (O2 + e -> O + O* + e) and not from direct electron impact excitation (O + e -> O* + e). Actinometry measurements show that the results are not really credible. Thus actinometry is not applicable on the investigated oxygen RF plasma. A challenge in interpretation is the observed excitation pattern IV. Pattern IV has to be caused in connection with heavy particle collisions nearby the electrode surface and could be observed in all the three plasmas oxygen, argon and hydrogen. It is located directly in front of the powered electrode and appears during almost the whole RF cycle. The temporal modulation is nearly sinusoidal and weak in comparison to the first three patterns. This is due to the weak RF modulation of the ion flux towards the electrode surface which has been proven by a PIC simulation. It could be shown that the modulation degree of pattern IV depends on the transition time of the corresponding positive ions through the RF sheath which is influenced by the ion mass. In oxygen as well as in argon CCRF plasmas pattern IV is less modulated than in hydrogen CCRF plasmas due to the heavier ions in oxygen and argon. Additionally the modulation degree increases with increasing pressure due to the more confined plasma at higher pressures which is yielding in a stronger modulated ion current towards the powered electrode.
The introduction of two-dimensional polyacrylamide gel electrophoresis (2-D PAGE) enabled the separation and visualization of a substantial fraction of an organism’s entire proteome, and when mass spectrometry entered protein science, these proteins became even amenable to identification on a grand scale. Nevertheless, important classes of proteins elude a separation on classical 2 D gels, as the ones showing extremes in isoelectric point or molecular weight, and foremost very hydrophobic proteins naturally embedded in lipid membranes. This thesis aimed at the establishment and adaptation of alternatives to 2-D PAGE. New techniques allowing for an identification and quantification of critical protein classes were designed and adopted to physiological questions in the Gram-positive bacteria Bacillus subtilis and Staphylococcus aureus. In a comprehensive study on cytoplasmic proteins of S. aureus COL the number of proteins identified by a 2-D gel based approach could be extended by 650 proteins employing gel free technologies. Application of these complementary methods resulted in the establishment of a comprehensive reference map of the cytosolic proteome in growing and non-growing S. aureus cells which can serve as basis for further physiological investigations. Gel free separation of complex protein digests was likewise used in a quantitative study on heat stress in B. subtilis. By implementation of the iTRAQ® technology four different physiological states could be relatively quantified in one experiment. A parallel generation of 2-D gel based data enabled the depiction of strengths and weaknesses of protein quantitation by both, spot intensities on 2-D gels and iTRAQ® signal intensities in MS/MS spectra. Furthermore, new insights into heat sensitivity of pivotal enzymes involved in amino acid biosynthesis could be delivered. The institution of gel free approaches and advancements in 2-D PAGE provide the tools to penetrate into yet unamenable scopes of proteomes. A review on proteome coverage in B. subtilis gives an overview on the strategies which have been explored for most comprehensive protein identification in various sub-proteomes. Although more than one third of B. subtilis’ open reading frames could be demonstrated on protein level, one has to be aware of the fact that it still is a long way to achieve complete coverage of its proteome. Integral membrane proteins make up about one quarter of the entirety of proteins in a cell. Despite their large portion they are clearly understudied due to the intricacy of identification. Their low abundance and non-accessibility of membrane-spanning domains represent major experimental difficulties. The establishment of a protocol efficiently depleting cytosolic proteins by membrane shaving and targeting trans-membrane peptides by novel digestion strategies essentially facilitated identification of highly hydrophobic integral membrane proteins. This protocol was not only successfully applied to the membrane proteome of growing S. aureus cells, but was shown to be applicable in B. subtilis as well. Both studies displayed the novel membrane shaving approach to be highly complementary to a previously established separation of membrane proteins via 1 D PAGE. A combination of the two techniques resulted in identification of about half of the theoretical membrane proteome in both bacteria, and hence layed the foundation for advanced and quantitative analyses. In this regard, 14N/15N metabolically labeled membrane samples of growing and non-growing cells of S. aureus COL were relatively quantified revealing a significant difference in amount for more than one third of the proteins. A corresponding experimental setup was used to compare the membrane proteomes of S. aureus SA113 and its mutant deficient in the lysylphosphatidylglycerol synthetase MprF. Interesting quantitative differences were obtained for proteins most likely involved in the regulation of cellular surface net charge as well as for virulence-associated proteins.
We present classical and hybrid modeling approaches for genetic regulatory networks focusing on promoter analysis for negatively and positively autoregulated networks. The main aim of this thesis is to introduce an alternative mathematical approach to model gene regulatory networks based on piecewise deterministic Markov processes (PDMP). During somitogenesis, a process describing the early segmentation in vertebrates, molecular oscillators play a crucial role as part of a segmentation clock. In mice, these oscillators are called Hes1 and Hes7 and are commonly modeled by a system of two delay differential equations including a Hill function, which describes gene repression by their own gene products. The Hill coefficient, which is a measure of nonlinearity of the binding processes in the promoter, is assumed to be equal to two, based on the fact that Hes1 and Hes7 form dimers.However, by standard arguments applied to binding analysis, we show that a higher Hill coefficient is reasonable. This leads to results different from those in literature which requires a more sophisticated model. For the Hes7 oscillator we present a system of ordinary differential equations including a Michaelis-Menten term describing a nonlinear degradation of the proteins by the ubiquitinpathway. As demonstrated by the Hes1 and Hes7 oscillator, promoter behavior can have strong influence on the dynamical behavior of genetic networks. Since purely deterministic systems cannot reveal phenomenons caused by the inherent random fluctuations, we propose a novel approach based on PDMPs. Such models allow to model binding processes of transcription factors to binding sites in a promoter as random processes, where all other processes like synthesis, degradation or dimerization of the gene products are modeled in deterministic manner. We present and discuss a simulation algorithm for PDMPs and apply it to three types of genetic networks: an unregulated gene, a toggle switch, and a positively autoregulated network. The different regulation characteristics are analyzed and compared by numerical means. Furthermore, we determine analytical solutions of the stationary distributions of one negatively, and three positively autoregulated networks. Based on these results, we analyze attenuation of noise in a negative feedback loop, and the question of graded or binary response in autocatalytic networks.
This thesis constitutes a computational study of charge and ion drag force on micron-sized dust particles immersed in rf discharges. Knowledge of dust parameters like dust charge, floating potential, shielding and ion drag force is very crucial for explaining complex laboratory dusty plasma phenomena, such as void formation in microgravity experiments and wakefield formation in the sheaths. Existing theoretical models assume standard distribution functions for plasma species and are applicable over a limited range of flow velocities and collisionality. Kinetic simulations are suitable tools for studying dust charging and drag force computation. The main aim of this thesis is to perform three dimensional simulations using a Particle-Particle-Particle-Mesh ($P^3M$) model to understand how the dust parameters vary for different positions of dust in rf discharges and how these parameters on a dust evolve in the presence of neighboring dust particles. At first, rf discharges in argon have been modelled using a three-dimensional PIC-MCC code for the discharge conditions relevant to the dusty plasma experiments. All necessary elastic and inelastic collisions have been considered. The plasma background is found collisional, charge-exchange collisions between ions and neutrals being dominant. Electron and ion distributions are non-Maxwellian. The dominant heating mechanism is Ohmic. Then, simulations have been done to compute the dust parameters for various sizes of dust located at different positions in the rf discharges. Dust charge and floating potential in the presheath are slightly larger than the values in the bulk due to the higher electron flux to the dust particle in the presheath. From presheath to the sheath the charge and floating potential values decrease due to the decrease of the electron current to the dust. A linear dependence of dust potential on dust size has been found, which results in a nonlinear dependence of the dust charge with the dust size when the particle is assumed to be a spherical capacitor. This has been verified by independently counting the charges collected by the dust. %where indeed it has been noted that the dust charge %scales nonlinearly with the dust size. The computed dust parameters are also compared with theoretical models. Simulated dust floating potentials are comparable to values obtained from Allen-Boyd-Reynolds (ABR) and Khrapak models, but much smaller than the values obtained from Orbit Motion Limited (OML) model. The dust potential distribution behaves Debye-H\"{u}ckel-like. The shielding lengths are in between ion and electron Debye lengths. % indicating shielding by both ions and electrons. Further, the orbital drag force is typically larger than the collection drag force. The total drag force for the collisional case is larger than for the collisionless case and it scales nonlinearly with the dust size. The collection drag values and size-scaling agrees with Zobnin's model. The charging and drag force computation is then extended to two and multiple static dust particles in the rf discharge to study the influence of neighboring dust particles on the dust parameters. Initially, the dust parameters on two dust particles are computed for various interparticle separation distances and for dust particles placed at different locations in the rf discharge. It is observed that for dust separations larger than the shielding length the dust parameters for the two dust particles match with the single dust particle values. As the dust separation is equal to or less than the shielding length the ion drag force increases due to the buildup of a parallel drag force component. However, the main dust properties like charge, potential, vertical component of ion drag are not affected considerably. This is attributed to the smaller collection impact parameter values compared to the dust separation. %This is because the %collection impact parameter values in the sheath and the presheath are smaller %than the smallest dust separation and in case of the dust in the bulk, the %collection impact parameter is comparable with the dust separation. Then the dust charges on multiple dust particles located at different positions in the discharge and arranged along the discharge axis are also computed. It is found that the charges of the multiple dust particles in the bulk or presheath do not differ much from the single particle values at that location. But the dust charges of multiple dust particles located in the sheath drastically differ from the single dust parameter values. Due to ion focusing from dust particles in the upper layers, the ion current increases to dust particles in the lower layers resulting in smaller charge values. This is as well the case where dust particles are vertically aligned as in the standard experiments of dusty plasmas. In conclusion, this work used a fully kinetic (PIC and MD or $P^3M$) model to study the physics of dust charging in rf plasmas. Our simulations revealed that the dust parameters vary considerably from the bulk to the sheath. The CX collisions increase flux to the dust thereby affecting the dust parameters and their scaling with dust size. Also, a dust particle affects the charging dynamics of its neighbor only when their separation is within the shielding length. In the plasma sheath, ion focussing can cause great reduction in dust charges.
In this work, the investigation of dusty plasma by means of tunable diode laser spectroscopy was carried out. Special interest was focused on the interactions of dust particles and metastable atoms. At first, Al density and temperature in dc and pulsed magnetron discharges were measured. Measurements with argon as working gas show an expected behavior of the measured atom density and temperature. Decrease of absorption signal was observed in argon/oxygen and argon/methane mixtures. A small admixture of oxygen leads to a complete disappearance of the absorption signal indicating vanishing Al atom density. The effect is believed to be caused by the oxidation of the magnetron target. This decrease reveals typical hysteresis behavior caused by poisoning of the target. Significant difference between critical oxygen flow value in dc and pulsed modes was registered. Then dust formation and plasma behaviors in hydrocarbon containing plasmas were analysed. The dust growing plasmas (Ar/C2H2, Ar/CH4 and Ar/C3H6 rf plasmas) were characterized by laser transmission and scattering methods, ion energy distribution function and mass spectrum evolution by plasma processing monitor, and the spatial distribution in pristine plasma and the temporal behavior of the metastable atom density in processing plasma using TDLAS. Pristine plasma were then characterized in term of metastable density and temperature. The radial distribution of neon metastable atom density in capacitive coupled rf discharge can be approximated to a Gaussian profile with the width smaller than plasma chamber radius. The diffusion flow of metastable atoms deduced from their spatial density distribution gives the loss of metastable atom in the plasma sheath. Argon metastable density was measured in rf plasma and compared with a simple model for metastable density. The model explains well the trend of metastable density with respect to the change of plasma input power. Metastable density of dusty plasma with injected dust particles was measured and compared to that of pristine plasma. The particle heating by metastable atoms was strongly evidenced. The power absorbed by dust particles due to bombardment of metastable atoms onto a dust particle surface in our experiments is about 0.04 Wm-2 for the low dust density case and lower for higher dust density which is in the same order as the contributions of kinetic energy of ions and electrons and the energy released by their recombination on the grain surface. The influence of dust particle density and size on metastable density was studied. Through measuring metastable density, TDLAS can be used as a tool to study the dust growth process in processing plasma.
Tourette syndrome has been associated with impairments of performance monitoring and alterations of attentional and executive functions. This impairment has been linked to fronto-striatal dysfunctions, which comprise the same braincircuits that are actively engaged in the suppression of tics. We compared behavioral performance and performance monitoring in nineteen boys with Tourette syndrome (TS) (mean age 12.64 years, ± 2.05) and nineteen age-matched controls (mean age 13.16 years, ± 2.29) in a Go/NoGo paradigm. This paradigm was designed to test for problems with inhibition and attention when withholding the response to NoGo targets following repetitive Go targets. The results indicated similar performance accuracy in the TS group and the control group. TS participants showed the expected pattern of Post-Error Slowing, but responded significantly also slower to correct Go trials than the controls. The reaction times (RT) to NoGo targets in commission errors, however, did not differ between the groups. The results suggest that boys with TS develop inhibitory adaptive strategies (overall slower reaction times) to maintain high performance accuracy. These effects may be suspended prior to and during NoGo commission errors.
The Syilx Okanagan environmental ethic is a philosophy expressed in the practice of Indigeneity as a social (cultural) paradigm and is identified by an inter-reliant experience in the land, as demonstrated in land-use practice which is shaped by the land’s realities as observed, learned and communicated to succeeding generations. Syilx Okanagan Indigeneity reflects an epistemology that optimum human wellbeing cannot be achieved through a human centered ethic but must focus on the optimum ability for the environment to regenerate itself. Syilx Okanagan stories convey the social experience and act as a records system to preserve, maintain and transfer the knowledge of the land. On one level, captikwl contain essential specific environmental knowledge as an oral documentation method, while on another level, as literature, captikwl reconstructs the ethos of interdependency specific to the ecology of the Syilx Okanagan territory through reenactment of nature’s interactions. captikwl in the Nsyilxcen language mimics the dynamic aspects of nature’s required regenerative principles to each succeeding generation, and acts as a feed-back loop reconstructing the social paradigm as an environmental ethic. captikwl might be seen as a distinctly Indigenous human adaptive response scheme within a natural system as it constructs the Syilx Okanagan world and results in behavior with sustainable outcome in the environment. captikwl is a distinct oral artistry that must be read through a literary framework cognizant of oral memory device, structure and Syilx Okanagan context. Okanagan author Morning Dove’s collection of Okanagan stories, as well as, the Mattina and DeSautel bilingual collections and other original version captikwl were consulted. Captikwl demonstrates the concept of tmixw which better translates as a life-force. The word for land is tmxwulaxw, which translates better as a life-force-place, rather than land as location or ecology type. Syilx society demonstrates an “ecological conscience” as the common text through captikwl which is enacted in their social institutions in the manner theorized by respected American conservationist Aldo Leopold, as desirable to achieve within society. The Syilx environmental ethic, rather than a sustainable human ethic of utility, is a willingness to live within a strict imperative to continuously sustain a unity of existence through societal knowledge and reverent practice of respect toward all life-forms. The Syilx environmental ethic diverges from ecocentrism, as articulated by Callicott, in recognizing a fundamental distinction between non-life forms and life forms, in their ability for self-regeneration through inter-reliance, as the focus for delineating moral considerability. The Syilx environmental ethic differs from biocentrism, as articulated by Taylor, in recognizing moral considerability as resting with the on-going life form which is capable of regeneration within its ecology, rather than the singular biological unit. The Syilx environmental ethic also differs from the concept of the ethics of place, as articulated by Berthold-Bond and characterized as an ethical bioregional human utility of a location. Tmixw is the life-force which makes up the tmxwulaxw or life-force-place and the humans are only “placed” as a life-force themselves through Indigeneity as a social paradigm within a criteria of full reciprocity in the regeneration of all life forms of a place. The Syilx environmental ethic also differs from the ethic of sustainability proposed by Daly as a steady state economic model of human utilitarianism, in the positioning of nature treated as capital, to be prudently developed in a way that off-sets depletions of renewable and non-renewable resources in meeting human requirements. The Syilx Okanagan view of economy, while structurally a sustainability model, does not construct value based on human utility as a defining line in decision-making as to which life forms are to be devalued and displaced. Syilx Indigeneity is guided through a societal dialogue practice of Enowkinwixw, a process of decision-making structured to include living within the requirements of the land to fully regenerate. Syilx Okanagan Indigeneity frames an environmental ethic from a tmixwcentric position and offers a model proposing an ethic of re-indigenization as a path to sustainability. The thesis proposes a common text for human society in the form of such literatures, since literature is widely accessible, which demonstrate, imbed and advocate a regenerative land ethic towards the re-indigenization of place.
Medulloblastoma is one of the most common malignant childhood brain tumors. Although advances in multimodal treatment have significantly improved the survival rate, the outcome of children is still very poor. Therefore, there is an urgent need to develop novel approaches that can increase survival and reduce long term side effects of patients. Histone deacetylase inhibitors (HDIs) have emerged as a promising new class of antineoplastic agents in cancer therapy. Among them, suberoylanilide hydroxamic acid (SAHA, vorinostat, Zolinza®) is a highly potential HDI which has been approved for treatment of cutaneous T-cell lymphoma and is currently used for treatment of various tumor cell types both in vivo and in vitro. However, only little information has been reported on the effects of SAHA on primary central nervous system (CNS) tumors including medulloblastoma. The DAOY cell line represents the most widely used model cell line for investigation of medulloblastoma. In a recent study, it was reported that SAHA induces apoptosis and cell cycle arrest of DAOY cells (Sonnemann et al., 2006). However, the molecular mechanisms underlying this antitumor activity are still not clear. Therefore, in this study, effects of SAHA on DAOY cells were analysed at the protein level by using both gel-based and gel-free proteomic approaches. A 2D proteome reference map of DAOY cells in pH range of 4-7 was created from control and 10 µM SAHA treated cells via a combined analysis using 2D electrophoresis and MALDI-TOF/TOF-MS. This reference map covers 1196 identified protein spots of more than 770 distinct proteins. This is the first report of a 2D proteome map of SAHA treated DAOY cells. Moreover, the number of covered proteins was increased with the aid of a 1D-RP-LC-ESI-MS/MS analysis. Both methods together gave rise to a total of over 1200 distinct protein species, which is the largest catalogue of proteins identified in DAOY cells so far. In SAHA treated cells, a series of proteins were found to be subjected to protein degradation after treatment with the drug, including mainly cytoskeleton proteins (e.g. beta-tubulin, beta/gamma-actin, vimentin, filamin interacting protein 1), heat shock protein HS90B and a component of the FACT chromosomal remodelling complex (SSRP1). Most of those proteins are known substrates for caspases. Interestingly, several of these protein degradations are reported as typical apoptotic events in brain cells such as fragmentations of lamin A/C, alpha-spectrin, myosin-9 and SSRP1. The 2D reference map was then used as an annotated database for further investigation of changes in protein expression and protein modification profiles of DAOY cells following SAHA treatment. By using the 2D-DIGE technique, SAHA was found to induce significant changes in protein levels of DAOY cells, especially at the concentration of 10 µM while considerably fewer changes in the protein pattern were observed after treatment with the lower dose of 2 µM. Quantitative analysis of total protein extracts using the 2D-DIGE technique (employing pH range of 4-7) and spectral counting (employing a 1D-RP-LC separation) resulted in the identification of 213 differentially expressed proteins after treatment with 10 µM SAHA. Most of the targeted proteins belong to the groups of cytoskeleton proteins (e.g. lamin B1, calreticulin, dynexin), heat shock proteins (e.g. HSP71, HSP7C, CH60, GRP78) and brain signal transductors (e.g. 14-3-3E, 14-3-3T, CRK, MARCS). Other proteins that changed in levels after SAHA treatment include proteins involved in chromatin remodelling (e.g. RUBV1, RUBV2), transcription regulation (e.g. YBOX, CBX5), redox regulation (e.g. TXND4, TXND5, BIEA), metabolism (e.g. G6PI, K6PP, LDHB) and RNA processing (HNRP K). In addition, cathepsin D, one of autophagic executors, was increased by SAHA treatment while different subunits of the 26S proteasome complex were decreased in levels after addition of SAHA. Interestingly, we found alterations of mitochondrial proteins indicating the perturbation of mitochondrial function. VDACs are pore forming proteins located on the outer mitochondrial membrane which is known to play an important role in the release of apoptogenic proteins such as cytochrome-c from mitochondria to cytoplasm and induction of apoptosis. In this study, VDAC1 and VDAC3 were found to be overexpressed after incubation with SAHA, which might lead to an extensive release of apoptogenic proteins. This result is consistent with the study of Sonnemann and co-workers showing that SAHA induced the mitochondrial apoptotic pathway of DAOY cells (Sonnemann et al., 2006). Furthermore, these results are also in agreement with the previously known antitumor activities of SAHA reported for other cancer cell lines, e.g. the up-regulation of heat shock proteins, prostaglandin synthase 3, ubiquinol cytochrome c reductase or the down-regulation of MARCS proteins. …………………
Application of quantum cascade laser absorption spectroscopy to studies of fluorocarbon molecules
(2009)
The recent advent of quantum cascade lasers (QCLs) enables room-temperature mid-infrared spectrometer operation which is particularly favourable for industrial process monitoring and control, i.e. the detection of transient and stable molecular species. Conversely, fluorocarbon containing radio-frequency discharges are of special interest for plasma etching and deposition as well as for fundamental studies on gas phase and plasma surface reactions. The application of QCL absorption spectroscopy to such low pressure plasmas is typically hampered by non-linear effects connected with the pulsed mode of the lasers. Nevertheless, adequate calibration can eliminate such effects, especially in the case of complex spectra where single line parameters are not available. In order to facilitate measurements in fluorocarbon plasmas, studies on complex spectra of CF4 and C3F8 at 7.86 μm (1269 – 1275 cm-1) under low pressure conditions have been performed. The intra-pulse mode, i.e. pulses of up to 300 ns, was applied yielding highly resolved spectral scans of ∼ 1 cm-1 coverage. Effective absorption cross sections were determined and their temperature dependence was studied in the relevant range up to 400 K and found to be non-negligible.