Calorimetric and spectroscopic studies characterization of newborn rat’ blood serum after maternal administration of cyclophosphamide

Differential scanning microcalorimetry (DSC) and UV–VIS absorption spectroscopy were used to obtain the characteristics of blood serum from newborn rat’ after maternal treatment with cyclophosphamide in comparison with control. The obtained DSC curves reveal a complex endothermic peak due to the unfolding process of various serum proteins. Thermal profiles and absorption spectra of blood serum are sensitive to the age of newborns as well as to effect of maternal administration of cyclophosphamide. The most significant disturbances in serum proteome were observed for 14-day old newborns. The thermodynamic parameters: enthalpy change (∆H), the normalized first moment (M₁) of the thermal transition with respect to the temperature axis and the ratio of C _p^ex at 70 and 60 °C describing denaturation contributions of globulin forms in respect to unliganded albumin with haptoglobin was estimated. Moreover, the second derivative spectroscopy in the UV region was used to resolve the complex protein spectrum. The differences in blood serum detected by DSC and UV–VIS confirm a potential usefulness of these methods for diagnostic and monitoring changes with age as well as the pathological state of blood serum.     

Discontinuous synchrony in an array of Van der Pol oscillators

We show the phenomenon of complete synchronization in an network of coupled oscillators. We confirm that non-diagonal coupling can lead to the appearance or disappearance of synchronous windows (ragged synchronizability phenomenon) in the coupling parameter space. We also show the appearance of clusters (synchronization in one or more group) between coupled systems. Our numerical studies are confirmed by an electronic experiment.     

Collisions of ideal gas molecules with a rough/fractal surface. A computational study

The frequency of collisions of ideal gas molecules (argon) with a rough surface has been studied. The rough/fractal surface was created using random deposition technique. By applying various depositions, the roughness of the surface was controlled and, as a measure of the irregularity, the fractal dimensions of the surfaces were determined. The surfaces were next immersed in argon (under pressures 2 x 10(3) to 2 x 10(5) Pa) and the numbers of collisions with these surfaces were counted. The calculations were carried out using a simplified molecular dynamics simulation technique (only hard core repulsions were assumed). As a result, it was stated that the frequency of collisions is a linear function of pressure for all fractal dimensions studied (D = 2, ..., 2.5). The frequency per unit pressure is quite complex function of the fractal dimension; however, the changes of that frequency with the fractal dimension are not strong. It was found that the frequency of collisions is controlled by the number of weakly folded sites on the surfaces and there is some mapping between the shape of adsorption energy distribution functions and this number of weakly folded sites. The results for the rough/fractal surfaces were compared with the prediction given by the Langmuir-Hertz equation (valid for smooth surface), generally the departure from the Langmuir-Hertz equation is not higher than 48% for the studied systems (i.e. for the surfaces created using the random deposition technique).     

Stearic acid spin labels in lipid bilayers: insight through atomistic simulations

Spin-labeled stearic acid species are commonly used for electron paramagnetic resonance (EPR) studies of cell membranes to investigate phase transitions, fluidity, and other physical properties. In this paper, we use large-scale molecular dynamics simulations to investigate the position and behavior of nitroxide spin labels attached to stearic acid molecules in dipalmitoylphosphatidylcholine (DPPC) bilayers. The results of these studies are potentially very important for the interpretation of EPR spectra, which rely on assumptions about the position of the label in the membrane. Additionally, we investigate the effect of chirality and ionization of the carboxyl group of the label. For a non-ionized species, we observe that spin-label molecules are even able to make flip-flop transitions between the leaflets of the bilayer. Such transitions have been previously observed only in very rare cases in molecular simulations.     

Chemical transformations of alcohols sampled with the use of adsorptive enrichment on the carbon adsorbent traps followed by thermal desorption

Graphitized carbons, Carbopack X, Carbograph 5TD and Carbotrap B, used to enrich samples of C(3)-C(4) alcohols determined in the atmospheric air produce experimental artefacts. After thermal desorption, recoveries for alcohols are much smaller than unity with a concomitant appearance of aldehydes and ketones on chromatograms. Obviously, the adsorbents studied cannot be recommended for analysis of alcohols, ketones and aldehydes in the atmosphere. Polymeric adsorbents, Tenax TA and Chromosorb 106, do not exhibit such oxidative properties.     

The merits of the frozen-density embedding scheme to model solvatochromic shifts

We investigate the usefulness of a frozen-density embedding scheme within density-functional theory [J. Phys. Chem. 97, 8050 (1993)] for the calculation of solvatochromic shifts. The frozen-density calculations, particularly of excitation energies have two clear advantages over the standard supermolecule calculations: (i) calculations for much larger systems are feasible, since the time-consuming time-dependent density functional theory (TDDFT) part is carried out in a limited molecular orbital space, while the effect of the surroundings is still included at a quantum mechanical level. This allows a large number of solvent molecules to be included and thus affords both specific and nonspecific solvent effects to be modeled. (ii) Only excitations of the system of interest, i.e., the selected embedded system, are calculated. This allows an easy analysis and interpretation of the results. In TDDFT calculations, it avoids unphysical results introduced by spurious mixings with the artificially too low charge-transfer excitations which are an artifact of the adiabatic local-density approximation or generalized gradient approximation exchange-correlation kernels currently used. The performance of the frozen-density embedding method is tested for the well-studied solvatochromic properties of the n-->pi(*) excitation of acetone. Further enhancement of the efficiency is studied by constructing approximate solvent densities, e.g., from a superposition of densities of individual solvent molecules. This is demonstrated for systems with up to 802 atoms. To obtain a realistic modeling of the absorption spectra of solvated molecules, including the effect of the solvent motions, we combine the embedding scheme with classical molecular dynamics (MD) and Car-Parrinello MD simulations to obtain snapshots of the solute and its solvent environment, for which then excitation energies are calculated. The frozen-density embedding yields estimated solvent shifts in the range of 0.20-0.26 eV, in good agreement with experimental values of between 0.19 and 0.21 eV.     

Polysiloxane microspheres functionalized with imidazole groups as a palladium catalyst support

Polysiloxane microspheres containing a large number of silanol groups were obtained by an emulsion process of modified polyhydromethylsiloxane. N‐substituted imidazole groups were grafted on these microspheres by the silylation of their silanol groups with N‐[γ‐(dimethylchlorosilyl)propyl]imidazole hydrochloride. The progress of the reaction was monitored using ²⁹Si and ¹³C magic angle spinning (MAS) NMR and its impact on microsphere morphology was studied using scanning electron microscopy (SEM). The usefulness of the imidazole‐functionalized microspheres as a support for a metal catalyst was demonstrated by their reaction with PdCl₂(PhCN)₂. In this way a new heterogenized catalyst, Pd(II) complex with imidazole ligands supported on polysiloxane microspheres, was generated. This catalyst, MPd , was characterized using ¹³C and ²⁹Si MAS NMR, X‐ray photoelectron, Fourier transform infrared and far‐infrared spectroscopies, X‐ray diffraction, SEM–energy‐dispersive X‐ray spectroscopy and wide‐angle X‐ray scattering. The catalyst appears in two structures, as Pd(II) complex and Pd(0) nanoclusters. Its catalytic activity was tested using a model reaction, the hydrogenation of cinnamaldehyde, and compared with that of an analogous complex operating in a homogeneous system. MPd showed a high activity in the promotion of hydrogenation of cinnamaldehyde. The activity in the substrate conversion was stable at least in five cycles of this reaction. The main product was hydrocinnamaldehyde which could be obtained with a yield above 70%. A mechanism of the reaction is proposed. Copyright © 2016 John Wiley & Sons, Ltd.     

Overmodulation of projections as signal‐to‐noise enhancement method in EPR imaging

A study concerning the image quality in electron paramagnetic resonance imaging in two‐dimensional spatial experiments is presented. The aim of the measurements was to improve the signal‐to‐noise ratio (SNR) of the projections and the reconstructed image by applying modulation amplitude higher than the radical electron paramagnetic resonance linewidth. Data were gathered by applying four constant modulation amplitudes, where one was below 1/3 (A_mod = 0.04 mT) of the radical linewidth (ΔB_pp = 0.14 mT). Three other modulation amplitude values were used in this experiment, leading to undermodulated (A_mod < 1/3 ΔB_pp), partially overmodulated (A_mod ~ 1/3 ΔB_pp) and fully overmodulated (A_mod > > 1/3 ΔB_pp) projections. The advantages of an applied overmodulation condition were demonstrated in the study performed on a phantom containing four shapes of 1.25 mM water solution of 2, 2, 6, 6‐tetramethyl‐1‐piperidinyloxyl. It was shown that even when the overmodulated reference spectrum was used in the deconvolution procedure, as well as the projection itself, the phantom shapes reconstructed as images directly correspond to those obtained in undermodulation conditions. It was shown that the best SNR of the reconstructed images is expected for the modulation amplitude close to 1/3 of the projection linewidth, which is defined as the distance from the first maximum to the last minimum of the gradient‐broadened spectrum. For higher modulation amplitude, the SNR of the reconstructed image is decreased, even if the SNR of the measured projection is increased. Copyright © 2015 John Wiley & Sons, Ltd.     

Column Chromatography and Preparative TLC for Isolation and Purification of Coumarins from Peucedanum verticillare L. Koch ex DC

JPC – Journal of Planar Chromatography – Modern TLC - Preparative separation and isolation of coumarins from petroleum ether and methanol extracts of the fruits and roots of Peucedanum...