Characterization of Glycan Structures of Chondroitin Sulfate-Glycopeptides Facilitated by Sodium Ion-Pairing and Positive Mode LC-MS/MS

Purification and liquid chromatography-tandem mass spectrometry (LC-MS/MS) characterization of glycopeptides, originating from protease digests of glycoproteins, enables site-specific analysis of protein N- and O-glycosylations. We have described a protocol to enrich, hydrolyze by chondroitinase ABC, and characterize chondroitin sulfate-containing glycopeptides (CS-glycopeptides) using positive mode LC-MS/MS. The CS-glycopeptides, originating from the Bikunin proteoglycan of human urine samples, had ΔHexAGalNAcGlcAGalGalXyl-O-Ser hexasaccharide structure and were further substituted with 0-3 sulfate and 0-1 phosphate groups. However, it was not possible to exactly pinpoint sulfate attachment residues, for protonated precursors, due to extensive fragmentation of sulfate groups using high-energy collision induced dissociation (HCD). To circumvent the well-recognized sulfate instability, we now introduced Na⁺ ions to form sodiated precursors, which protected sulfate groups from decomposition and facilitated the assignment of sulfate modifications. Sulfate groups were pinpointed to both Gal residues and to the GalNAc of the hexasaccharide structure. The intensities of protonated and sodiated saccharide oxonium ions were very prominent in the HCD-MS2 spectra, which provided complementary structural analysis of sulfate substituents of CS-glycopeptides. We have demonstrated a considerable heterogeneity of the bikunin CS linkage region. The realization of these structural variants should be beneficial in studies aimed at investigating the importance of the CS linkage region with regards to the biosynthesis of CS and potential interactions to CS binding proteins. Also, the combined use of protonated and sodiated precursors for positive mode HCD fragmentation analysis will likely become useful for additional classes of sulfated glycopeptides.

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Homogenization of a variational inequality for the <Emphasis Type="Italic">p</Emphasis>-Laplacian in perforated media with nonlinear restrictions for the flux on the boundary of isoperimetric perforations: <Emphasis Type="Italic">p</Emphasis> equal to the dimension of the space

We address the homogenization of a variational inequality posed in perforated media issue from a unilateral problem for the p-Laplacian. We consider the n-Laplace operator in a perforated domain of ?ⁿ, n ≥ 3, with restrictions for the solution and its flux (the flux associated with the n-Laplacian) on the boundary of the perforations which are assumed to be isoperimetric. The solution is assumed to be positive on the boundary of the holes and the flux is bounded from above by a negative, nonlinear monotone function multiplied by a large parameter. A certain non periodical distribution of the perforations is allowed while the assumption that their size is much smaller than the periodicity scale is performed. We make it clear that in the average constants of the problem, the perimeter of the perforations appears for any shape.     

A genetic algorithm for a global optimization problem arising in the detection of gravitational waves

The detection of gravitational waves is a long-awaited event in modern physics and, to achieve this challenging goal, detectors with high sensitivity are being used or are under development. In order to extract gravitational signals emitted by coalescing binary systems of compact objects (neutron stars and/or black holes), from noisy data obtained by interferometric detectors, the matched filter technique is generally used. Its computational kernel is a box-constrained global optimization problem with many local solutions and a highly nonlinear and expensive objective function, whose derivatives are not available. To tackle this problem, we designed a real-coded genetic algorithm that exploits characteristic features of the problem itself; special attention was devoted to the choice of the initial population and of the recombination operator. Computational experiments showed that our algorithm is able to compute a reasonably accurate solution of the optimization problem, requiring a much smaller number of function evaluations than the grid search, which is generally used to solve this problem. Furthermore, the genetic algorithm largely outperforms other global optimization algorithms on significant instances of the problem.     

A kinematical study of Kirchhoff-Rayleigh flow

Summary A method of calculating the separated flow of a viscous fluid is proposed, which allows to split up properly the boundary condition problem from the viscous phenomena. The theory is developed for the flow past a plate and yields wakes of finite extension having an underpressure which depends directly on the amount of vorticity diffusion and dissipation occurring in the fluid. Application of the method to real flows shows good agreement between the calculated and the measured velocity distributions in front of the plate and in the wake.

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Résumé Une méthode de calcul de l'écoulement décollé d'un fluide visqueux est proposée qui permet de séparer clairement le problème aux limites des phénomènes visqueux. La théorie est développée pour l'écoulement autour d'une plaque et donne des sillages de longueur finie ayant une dépression de culot directement dépendante de l'intensité de la diffusion et dissipation de la vorticité se produisant dans le fluide. L'application de la méthode à des écoulements réels montre une bonne concordance entre les répartitions de vitesse calculées et mesurées sur le devant de la plaque et dans le sillage.