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- ItemCharge isomers of myelin basic protein: Structure and interactions with membranes, nucleotide analogues, and calmodulin(San Francisco, CA : Public Library of Science, 2011) Wang, C.; Neugebauer, U.; Bürck, J.; Myllykoski, M.; Baumgärtel, P.; Popp, J.; Kursula, P.As an essential structural protein required for tight compaction of the central nervous system myelin sheath, myelin basic protein (MBP) is one of the candidate autoantigens of the human inflammatory demyelinating disease multiple sclerosis, which is characterized by the active degradation of the myelin sheath. In this work, recombinant murine analogues of the natural C1 and C8 charge components (rmC1 and rmC8), two isoforms of the classic 18.5-kDa MBP, were used as model proteins to get insights into the structure and function of the charge isomers. Various biochemical and biophysical methods such as size exclusion chromatography, calorimetry, surface plasmon resonance, small angle X-ray and neutron scattering, Raman and fluorescence spectroscopy, and conventional as well as synchrotron radiation circular dichroism were used to investigate differences between these two isoforms, both from the structural point of view, and regarding interactions with ligands, including calmodulin (CaM), various detergents, nucleotide analogues, and lipids. Overall, our results provide further proof that rmC8 is deficient both in structure and especially in function, when compared to rmC1. While the CaM binding properties of the two forms are very similar, their interactions with membrane mimics are different. CaM can be used to remove MBP from immobilized lipid monolayers made of synthetic lipids - a phenomenon, which may be of relevance for MBP function and its regulation. Furthermore, using fluorescently labelled nucleotides, we observed binding of ATP and GTP, but not AMP, by MBP; the binding of nucleoside triphosphates was inhibited by the presence of CaM. Together, our results provide important further data on the interactions between MBP and its ligands, and on the differences in the structure and function between MBP charge isomers.
- ItemSmart skin patterns protect springtails(San Francisco, CA : Public Library of Science, 2011) Helbig, R.; Nickerl, J.; Neinhuis, C.; Werner, C.Springtails, arthropods who live in soil, in decaying material, and on plants, have adapted to demanding conditions by evolving extremely effective and robust anti-adhesive skin patterns. However, details of these unique properties and their structural basis are still unknown. Here we demonstrate that collembolan skin can resist wetting by many organic liquids and at elevated pressures. We show that the combination of bristles and a comb-like hexagonal or rhombic mesh of interconnected nanoscopic granules distinguish the skin of springtails from anti-adhesive plant surfaces. Furthermore, the negative overhang in the profile of the ridges and granules were revealed to be a highly effective, but as yet neglected, design principle of collembolan skin. We suggest an explanation for the non-wetting characteristics of surfaces consisting of such profiles irrespective of the chemical composition. Many valuable opportunities arise from the translation of the described comb-like patterns and overhanging profiles of collembolan skin into man-made surfaces that combine stability against wear and friction with superior non-wetting and anti-adhesive characteristics.
- ItemAn electronic analog of synthetic genetic networks(San Francisco, CA : Public Library of Science (PLoS), 2011) Hellen, E.H.; Volkov, E.; Kurths, J.; Dana, S.K.An electronic analog of a synthetic genetic network known as the repressilator is proposed. The repressilator is a synthetic biological clock consisting of a cyclic inhibitory network of three negative regulatory genes which produces oscillations in the expressed protein concentrations. Compared to previous circuit analogs of the repressilator, the circuit here takes into account more accurately the kinetics of gene expression, inhibition, and protein degradation. A good agreement between circuit measurements and numerical prediction is observed. The circuit allows for easy control of the kinetic parameters thereby aiding investigations of large varieties of potential dynamics.
- ItemAnalysing dynamical behavior of cellular networks via stochastic bifurcations(San Francisco, CA : Public Library of Science (PLoS), 2011) Zakharova, A.; Kurths, J.; Vadivasova, T.; Koseska, A.The dynamical structure of genetic networks determines the occurrence of various biological mechanisms, such as cellular differentiation. However, the question of how cellular diversity evolves in relation to the inherent stochasticity and intercellular communication remains still to be understood. Here, we define a concept of stochastic bifurcations suitable to investigate the dynamical structure of genetic networks, and show that under stochastic influence, the expression of given proteins of interest is defined via the probability distribution of the phase variable, representing one of the genes constituting the system. Moreover, we show that under changing stochastic conditions, the probabilities of expressing certain concentration values are different, leading to different functionality of the cells, and thus to differentiation of the cells in the various types.
- ItemHomopolymerization of ethylene, 1-hexene, styrene and copolymerization of styrene with 1,3-cyclohexadiene using (η5- tetramethylcyclopentadienyl)dimethylsilyl(N-Ar')amido-TiCl2/MAO (Ar'=6-(2-(diethylboryl)phenyl)pyrid-2-yl, biphen-3-yl)(Basel : MDPI AG, 2011) Camadanli, S.; Decker, U.; Kühnel, C.; Reinhardt, I.; Buchmeiser, M.R.The propensity of a half-sandwich (η55- tetramethylcyclopentadienyl) dimethylsilylamido TiIV-based catalyst bearing an auxiliary diethylboryl-protected pyridyl moiety (Ti-8), activated by methylaluminoxane (MAO) to homopolymerize α-olefins such as ethylene, 1-hexene and styrene as well as to copolymerize styrene with 1,3-cyclohexadiene is described. The reactivity of Ti-8 was investigated in comparison to a 6-(2-(diethylboryl)phenyl)pyrid-2-yl-free analogue (Ti-3).
- ItemX-ray nanodiffraction on a single SiGe quantum dot inside a functioning field-effect transistor(Washington, DC : American Chemical Society, 2011) Hrauda, N.; Zhang, J.; Wintersberger, E.; Etzelstorfer, T.; Mandl, B.; Stangl, J.; Carbone, D.; Holý, V.; Jovanović, V.; Biasotto, C.; Nanver, L.K.; Moers, J.; Grützmacher, D.; Bauer, G.For advanced electronic, optoelectronic, or mechanical nanoscale devices a detailed understanding of their structural properties and in particular the strain state within their active region is of utmost importance. We demonstrate that X-ray nanodiffraction represents an excellent tool to investigate the internal structure of such devices in a nondestructive way by using a focused synchotron X-ray beam with a diameter of 400 nm. We show results on the strain fields in and around a single SiGe island, which serves as stressor for the Si-channel in a fully functioning Si-metal-oxide semiconductor field-effect transistor.
- ItemA human development framework for CO 2 reductions(San Francisco, CA : Public Library of Science (PLoS), 2011) Costa, L.; Rybski, D.; Kropp, J.P.Although developing countries are called to participate in CO 2 emission reduction efforts to avoid dangerous climate change, the implications of proposed reduction schemes in human development standards of developing countries remain a matter of debate. We show the existence of a positive and time-dependent correlation between the Human Development Index (HDI) and per capita CO 2 emissions from fossil fuel combustion. Employing this empirical relation, extrapolating the HDI, and using three population scenarios, the cumulative CO 2 emissions necessary for developing countries to achieve particular HDI thresholds are assessed following a Development As Usual approach (DAU). If current demographic and development trends are maintained, we estimate that by 2050 around 85% of the world's population will live in countries with high HDI (above 0.8). In particular, 300 Gt of cumulative CO 2 emissions between 2000 and 2050 are estimated to be necessary for the development of 104 developing countries in the year 2000. This value represents between 20 % to 30 % of previously calculated CO 2 budgets limiting global warming to 2°C. These constraints and results are incorporated into a CO 2 reduction framework involving four domains of climate action for individual countries. The framework reserves a fair emission path for developing countries to proceed with their development by indexing country-dependent reduction rates proportional to the HDI in order to preserve the 2°C target after a particular development threshold is reached. For example, in each time step of five years, countries with an HDI of 0.85 would need to reduce their per capita emissions by approx. 17% and countries with an HDI of 0.9 by 33 %. Under this approach, global cumulative emissions by 2050 are estimated to range from 850 up to 1100 Gt of CO 2. These values are within the uncertainty range of emissions to limit global temperatures to 2°C.
- ItemRemoving biofilms from microstructured titanium Ex Vivo: A novel approach using atmospheric plasma technology(San Francisco, CA : Public Library of Science, 2011) Rupf, S.; Idlibi, A.N.; Marrawi, F.A.; Hannig, M.; Schubert, A.; von Mueller, L.; Spitzer, W.; Holtmann, H.; Lehmann, A.; Rueppell, A.; Schindler, A.The removal of biofilms from microstructured titanium used for dental implants is a still unresolved challenge. This experimental study investigated disinfection and removal of in situ formed biofilms from microstructured titanium using cold atmospheric plasma in combination with air/water spray. Titanium discs (roughness (Ra): 1.96 μm) were exposed to human oral cavities for 24 and 72 hours (n = 149 each) to produce biofilms. Biofilm thickness was determined using confocal laser scanning microscopy (n = 5 each). Plasma treatment of biofilms was carried out ex vivo using a microwave-driven pulsed plasma source working at temperatures from 39 to 43°C. Following plasma treatment, one group was air/water spray treated before re-treatment by second plasma pulses. Vital microorganisms on the titanium surfaces were identified by contact culture (Rodac agar plates). Biofilm presence and bacterial viability were quantified by fluorescence microscopy. Morphology of titanium surfaces and attached biofilms was visualized by scanning electron microscopy (SEM). Total protein amounts of biofilms were colorimetrically quantified. Untreated and air/water treated biofilms served as controls. Cold plasma treatment of native biofilms with a mean thickness of 19 μm (24 h) to 91 μm (72 h) covering the microstructure of the titanium surface caused inactivation of biofilm bacteria and significant reduction of protein amounts. Total removal of biofilms, however, required additional application of air/water spray, and a second series of plasma treatment. Importantly, the microstructure of the titanium discs was not altered by plasma treatment. The combination of atmospheric plasma and non-abrasive air/water spray is applicable for complete elimination of oral biofilms from microstructured titanium used for dental implants and may enable new routes for the therapy of periimplant disease.
- ItemA semantic sensor web for environmental decision support applications(Basel : MDPI AG, 2011) Gray, A.J.G.; Sadler, J.; Kit, O.; Kyzirakos, K.; Karpathiotakis, M.; Calbimonte, J.-P.; Page, K.; Garćia-Castro, R.; Frazer, A.; Galpin, I.; Fernandes, A.A.A.; Paton, N.W.; Corcho, O.; Koubarakis, M.; de Roure, D.; Martinez, K.; Gómez-Pérez, A.Sensing devices are increasingly being deployed to monitor the physical world around us. One class of application for which sensor data is pertinent is environmental decision support systems, e.g., flood emergency response. For these applications, the sensor readings need to be put in context by integrating them with other sources of data about the surrounding environment. Traditional systems for predicting and detecting floods rely on methods that need significant human resources. In this paper we describe a semantic sensor web architecture for integrating multiple heterogeneous datasets, including live and historic sensor data, databases, and map layers. The architecture provides mechanisms for discovering datasets, defining integrated views over them, continuously receiving data in real-time, and visualising on screen and interacting with the data. Our approach makes extensive use of web service standards for querying and accessing data, and semantic technologies to discover and integrate datasets. We demonstrate the use of our semantic sensor web architecture in the context of a flood response planning web application that uses data from sensor networks monitoring the sea-state around the coast of England.
- ItemMicrostructured optical fiber sensors embedded in a laminate composite for smart material applications(Basel : MDPI AG, 2011) Sonnenfeld, C.; Sulejmani, S.; Geernaert, T.; Eve, S.; Lammens, N.; Luyckx, G.; Voet, E.; Degrieck, J.; Urbanczyk, W.; Mergo, P.; Becker, M.; Bartelt, H.; Berghmans, F.; Thienpont, H.Fiber Bragg gratings written in highly birefringent microstructured optical fiber with a dedicated design are embedded in a composite fiber-reinforced polymer. The Bragg peak wavelength shifts are measured under controlled axial and transversal strain and during thermal cycling of the composite sample. We obtain a sensitivity to transversal strain that exceeds values reported earlier in literature by one order of magnitude. Our results evidence the relevance of using microstructured optical fibers for structural integrity monitoring of composite material structures.