Numerical simulation of non-Newtonian blood flow in bypass models

The article presents the numerical investigation of non–Newtonian effects of steady blood flow in complete idealized 3–D bypass models, whose native artery is either coronary or femoral with average physiological parameters. Considering the blood to be a generalized Newtonian fluid, the shear–dependent viscosity is described by two well–known macroscopic non–Newtonian models (the Carreau–Yasuda model and the modified Cross model). The results were obtained by own developed computational software based on the pseudo–compressibility approach and on the cell–centred finite volume method defined on unstructured hexahedral grids. (© 2008 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim)     

The Contribution of the Activation Entropy to the Gas-Phase Stability of Modified Nucleic Acid Duplexes

Tricyclo-DNA (tcDNA) is a sugar-modified analogue of DNA currently tested for the treatment of Duchenne muscular dystrophy in an antisense approach. Tandem mass spectrometry plays a key role in modern medical diagnostics and has become a widespread technique for the structure elucidation and quantification of antisense oligonucleotides. Herein, mechanistic aspects of the fragmentation of tcDNA are discussed, which lay the basis for reliable sequencing and quantification of the antisense oligonucleotide. Excellent selectivity of tcDNA for complementary RNA is demonstrated in direct competition experiments. Moreover, the kinetic stability and fragmentation pattern of matched and mismatched tcDNA heteroduplexes were investigated and compared with non-modified DNA and RNA duplexes. Although the separation of the constituting strands is the entropy-favored fragmentation pathway of all nucleic acid duplexes, it was found to be only a minor pathway of tcDNA duplexes. The modified hybrid duplexes preferentially undergo neutral base loss and backbone cleavage. This difference is due to the low activation entropy for the strand dissociation of modified duplexes that arises from the conformational constraint of the tc-sugar-moiety. The low activation entropy results in a relatively high free activation enthalpy for the dissociation comparable to the free activation enthalpy of the alternative reaction pathway, the release of a nucleobase. The gas-phase behavior of tcDNA duplexes illustrates the impact of the activation entropy on the fragmentation kinetics and suggests that tandem mass spectrometric experiments are not suited to determine the relative stability of different types of nucleic acid duplexes.

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Features of X-ray fluorescence determination of rock-forming elements in powder samples of peat sediments

The features of rock-forming elements determination in powder samples of peat sediments are considered. Based on theoretical calculations and experimental data, the mineralogical and particle size effects on the X-ray fluorescence intensity have been estimated. For routine analysis, powder rock samples are usually milled to a particle size of 10–60 μm. Theoretically, estimated variations of rock-forming elements analytical lines intensities in different minerals are up to 30%, and the particle size effect cannot be eliminated simultaneously for all rock-forming elements. Experimental estimation shows that the impossibility of the particle size distribution control can lead to significant variations in the intensities of the analytical lines (3%–18%) that is mainly corresponding to theoretical estimation. Fine milling allowed us to achieve an average particle size of fewer than 20 μm and reduce the measurement uncertainty by 1.5–2 times. 12 samples of peat sediments with organic matter content up to 70 wt% were analyzed by X-ray fluorescence analysis using different sample preparation techniques, as well as by certified methods. The accuracy of X-ray fluorescence analysis of peat sediments prepared as pressed pellets varies from 1.5 to 11 rel% depending on compound contents. It is more than for samples prepared as fused beads, however, the proposed method can be used to determine the variations of rock-forming elements contents in peat sediments where the content variations exceed the measurement uncertainty, and accuracy of analysis is sufficient for further paleoecological reconstructions.     

Asymmetric allylic alkylation of acyclic allylic ethers with organolithium reagents

A highly efficient, regio- and enantioselective Cu(I) /phosphoramidite-catalyzed asymmetric allylic alkylation of allyl ethers with organolithium reagents is reported. The use of organolithium reagents is essential for this catalytic C?C bond formation due to their compatibility with different Lewis acids. The versatility of allylic ethers under the copper-catalyzed reaction conditions with organolithium reagents is demonstrated in the shortest synthesis of (S)-Arundic acid.     

Controlled Anchoring of (Phenylureido)sulfonamide-Based Receptor Moieties: An Impact of Binding Site Multiplication on Complexation Properties

The repetition of urea-based binding units within the receptor structure does not only lead to monomer properties multiplication. As confirmed by spectroscopic studies, UV-Vis and ¹H-NMR in classical or competitive titration mode, the attachment to a carrier allocates the active moieties to mutual positions predetermining the function of the whole receptor molecule. Bivalent receptors form self-aggregates. Dendritic receptors with low dihydrogen phosphate loadings offer a cooperative complexation mode associated with a positive dendritic effect. In higher dihydrogen phosphate concentrations, the dendritic branches act independently and the binding mode changes to 1:1 anion: complexation site. Despite the anchoring, the dendritic receptors retain the superior efficiency and selectivity of a monomer, paving the way to recyclable receptors, desirable for economic and ecological reasons.     

Preparation of inorganic crystalline compounds induced by ionizing,UV and laser radiations

Results on preparation of nickel, zinc, yttrium, aluminum and cobalt oxides, zinc peroxide and hydroxide, yttrium and lutetium aluminum garnets and cobalt(II) aluminate via irradiation of aqueous solutions containing soluble metal salts and radical scavengers (formate anion or propan-2-ol) are summarized in this paper. Various physico-chemical and structural properties of prepared compounds (e.g. crystallinity, specific surface area, particle size) are also reported.All used variants of radiation method are rather convenient and simple, and yield nano-scale powder materials with interesting characteristics. Prepared materials generally have high chemical purity, high specific surface area and narrow distribution of particle size (ranging in tens of nm).Generally, accelerated electrons, gamma, and UV radiation yield materials with comparable properties and structural characteristics, but UV-radiation seems to be the most convenient for preparation of intricate compounds such as synthetic garnets and spinels, while ionizing radiation is better for preparation of compounds doped with foreign ions.Among discussed compounds, only zinc oxide, peroxide and hydroxide were prepared directly via irradiation. For preparation of other crystalline oxidic compounds, mild heat treatment of amorphous or weakly crystalline solid phase was necessary.     

Stable Pyrrole-Linked Bioconjugates through Tetrazine-Triggered Azanorbornadiene Fragmentation

An azanorbornadiene bromovinyl sulfone reagent for cysteine-selective bioconjugation has been developed. Subsequent reaction with dipyridyl tetrazine leads to bond cleavage and formation of a pyrrole-linked conjugate. The latter involves ligation of the tetrazine to the azanorbornadiene-tagged protein through inverse electron demand Diels–Alder cycloaddition with subsequent double retro-Diels–Alder reactions to form a stable pyrrole linkage. The sequence of site-selective bioconjugation followed by bioorthogonal bond cleavage was efficiently employed for the labelling of three different proteins. This method benefits from easy preparation of these reagents, selectivity for cysteine, and stability after reaction with a commercial tetrazine, which has potential for the routine preparation of protein conjugates for chemical biology studies.     

Liquid chromatography of synthetic polymers under critical conditions of enthalpic interactions 4: Sample recovery

Reduced sample recovery is a frequent feature of LC of macromolecules under critical conditions of enthalpic interactions (LC CC). Several methods of assessment of LC CC sample recovery are compared. A novel approach is based on an online combination of the. The LC CC column with a noninteractive SEC column. It provides not only the amount but also the molar mass of the eluted/withheld polymer. The procedure was tested with poly(methyl methacrylate), bare silica gel column packings, and “critical eluent” tetrahydrofuran/toluene. It was shown that macromolecules with higher molar masses were preferentially trapped within the LC CC column packing so that the eluted part of the sample was no longer representative. The incomplete polymer elution can make the LC CC polymer analyses susceptible to significant experimental errors.     

Two Tags in One Probe: Combining Fluorescence- and Biotin-based Detection of the Trypanosomal Cysteine Protease Rhodesain

Rhodesain is the major cysteine protease of the protozoan parasite Trypanosoma brucei and a therapeutic target for sleeping sickness, a fatal neglected tropical disease. We designed, synthesized and characterized a bimodal activity-based probe that binds to and inactivates rhodesain. This probe exhibited an irreversible mode of action and extraordinary potency for the target protease with a k_inac/K_i value of 37,000 M⁻¹s⁻¹. Two reporter tags, a fluorescent coumarin moiety and a biotin affinity label, were incorporated into the probe and enabled highly sensitive detection of rhodesain in a complex proteome by in-gel fluorescence and on-blot chemiluminescence. Furthermore, the probe was employed for microseparation and quantification of rhodesain and for inhibitor screening using a competition assay. The developed bimodal rhodesain probe represents a new proteomic tool for studying Trypanosoma pathobiochemistry and antitrypanosomal drug discovery.     

Dinuclear copper(II) perchlorate complexes with 6-(benzylamino)purine derivatives: Synthesis,X-ray structure,magnetism and antiradical activity

The reactions of Cu(ClO₄)₂·6H₂O with 6-(benzylamino)purine derivatives in a stoichiometric 1:2 metal-to-ligand ratio led to the formation of penta-coordinated dinuclear complexes of the formula [Cu₂(μ-L^1–8)₄(ClO₄)₂](ClO₄)₂·nsolv, where L¹ = 6-(2-fluorobenzylamino)purine (complex 1), L² = 6-(3-fluorobenzylamino)purine (2), L³ = 6-(4-fluorobenzylamino)purine (3), L⁴ = 6-(2-chlorobenzylamino)purine (4), L⁵ = 6-(3-chlorobenzylamino)purine (5), L⁶ = 6-(4-chlorobenzylamino)purine (6), L⁷ = 6-(3-methoxybenzylamino)purine (7) and L⁸ = 6-(4-methoxybenzylamino)purine (8); n = 0–4 and solv = H₂O, EtOH or MeOH. All the complexes have been fully characterized by elemental analysis, FTIR, UV–Vis and EPR spectroscopy, and by magnetic and conductivity measurements. Variable temperature (80–300 K) magnetic susceptibility data of 1–8 showed the presence of a strong antiferromagnetic exchange interaction between two Cu(II) (S = 1/2) atoms with J ranging from −150.0(1) to −160.3(2) cm⁻¹. The compound 6·4EtOH·H₂O was structurally characterized by single crystal X-ray analysis. The Cu?Cu separation has been found to be 2.9092(8) Å. The antiradical activity of the prepared compounds was tested by in vitro SOD-mimic assay with IC₅₀ in the range 8.67–41.45 μM. The results of an in vivo antidiabetic activity assay were inconclusive and the glycaemia in pre-treated animals did not differ significantly from the positive control.