High‐throughput workflow for identification of phosphorylated peptides by LC‐MALDI‐TOF/TOF‐MS coupled to in situ enrichment on MALDI plates functionalized by ion landing

We report an MS‐based workflow for identification of phosphorylated peptides from trypsinized protein mixtures and cell lysates that is suitable for high‐throughput sample analysis. The workflow is based on an in situ enrichment on matrix‐assisted laser desorption/ionization (MALDI) plates that were functionalized by TiO₂ using automated ion landing apparatus that can operate unsupervised. The MALDI plate can be functionalized by TiO₂ into any array of predefined geometry (here, 96 positions for samples and 24 for mass calibration standards) made compatible with a standard MALDI spotter and coupled with high‐performance liquid chromatography. The in situ MALDI plate enrichment was compared with a standard precolumn‐based separation and achieved comparable or better results than the standard method. The performance of this new workflow was demonstrated on a model mixture of proteins as well as on Jurkat cells lysates. The method showed improved signal‐to‐noise ratio in a single MS spectrum, which resulted in better identification by MS/MS and a subsequent database search. Using the workflow, we also found specific phosphorylations in Jurkat cells that were nonspecifically activated by phorbol 12‐myristate 13‐acetate. These phosphorylations concerned the mitogen‐activated protein kinase/extracellular signal‐regulated kinase signaling pathway and its targets and were in agreement with the current knowledge of this signaling cascade. Control sample of non‐activated cells was devoid of these phosphorylations. Overall, the presented analytical workflow is able to detect dynamic phosphorylation events in minimally processed mammalian cells while using only a short high‐performance liquid chromatography gradient. Copyright © 2015 John Wiley & Sons, Ltd.     

H2O nucleation around Au+

First principles electronic structure calculations have been carried out to investigate the ground state geometry, electronic structure, and the binding energy of [Au(H2O)n]+ clusters containing up to 10 H2O molecules. It is shown that the first coordination shell of Au+ contains two H2O molecules forming a H2O-Au+-H2O structure with C2 symmetry. Subsequent H2O molecules bind to the previous H2O molecules forming stable and fairly rigid rings, each composed of 4 H2O molecules, and leading to a dumbbell structure at [Au(H2O)8]+. The 9th and the 10th H2O molecules occupy locations above the Au+ cation mainly bonded to one H2O from each ring, leading to structures where the side rings are partially distorted and forming structures that resemble droplet formation around the Au+ cation. The investigations highlight quantum effects in nucleation at small sizes and provide a microscopic understanding of the observed incremental binding energy deduced from collision induced dissociation that indicates that [Au(H2O)n]+ clusters with 7-10 H2O molecules have comparable binding energy. The charge on the Au+ is shown to migrate to the outside H2O molecules, suggesting an interesting screening phenomenon.     

Isolation of Bisphenol A-Tolerating/degrading Shewanella haliotis Strain MH137742 from an Estuarine Environment

Applied Biochemistry and Biotechnology - The human exposure to bisphenol A (BPA) occurs frequently. Once, this compound was one of the highest volume chemicals produced worldwide and used as a...     

Determination of lead in the urine of exposed and unexposed adults by extraction and flow-injection/atomic absorption spectrometry

Lead is extracted from urine with ammonium pyrrolidien dithiocrbamate into methyl isobutyl ketone, and 20 μl of the extract is injected into a water carrier stream in a flow-injection/atomic absorption system. The procedure is simple, quick, accurate and reproducible. Recoveries are 96–105%. The mean urine lead contents of 20 unexposed and 20 printing-press lead exposed workers was found to be 39.0 ± 8.3 and 71.7 ± 26.3 μg Pb l^?1, respectively.     

Alkyloxycarbonyl group migration in furanosides

A migration of methyloxycarbonyl group from secondary to primary hydroxyl was observed in furanosides (ribosides and xylosides) under usual desilylation conditions using tetrabutylammonium fluoride. The migration was studied further on several alkyloxycarbonyl furanosides under either basic or acidic conditions. As follows from ¹³C labelling experiments and product distribution, the migration in xylosides, proceeds intramolecularly via six-membered cyclic carbonate, whereas in ribosides, the migration is intermolecular. Acidic conditions prevented the migration in ribosides whereas the migration in xylosides was circumvented under neutral conditions.     

Analytical applications of organized assemblies for on-line spectrometric determinations: present and future

An amphiphile (surfactant) spread on water can lead to the formation of different aggregates: vesicles, miscelles, emulsions or microemulsions; depending on its concentration; its molecular structure and/or the experimental conditions. Such aggregates, (a) may concentrate products, reactants or analytes and so improve the analytical sensitivity and (b) may solubilize such substances and so favorably change the analytical selectivity. Bilayer membrane vesicles for instance, apart from their wide applications in cosmetic and pharmaceutical industries, have a great analytical potential due to their ability to (i) reversibly sequester metal ions avoiding matrix interference and (ii) improve cold vapor (Hg and Cd) and hydride (As, Se, Pb) chemical generation. Micellar solutions have also found wide applications in different areas of analytical chemistry, showing their capacity to concentrate and separate a significant variety of analytes. Among the numerous micelle-based separation techniques, cloud point extraction offers an excellent enrichment factor for metal ions, allowing their quantification at microgram/litre levels. Also agitating a mixture of water, oil and one or more surfactants under controlled experimental conditions, a cloudy mixture (emulsion) or a transparent solution (microemulsion) can be formed. Adequate formulation is necessary in order to obtain a stable organized media. To fulfill this requirement, a major effort is necessary in order to shorten the gap between the current knowledge on this topic and the promising field of applications that await development. Recent publications show that self-assembly structures from highly viscous samples can be accomplished on-line with the advantages of drastically reducing the time of analysis and assuring the absolute control over the stability of the aggregate. Flow systems allow effective mixing of samples with added surfactant and provide continuous pumping of the resulting mixture to sensitive detectors for the on-line determination of different analytes in complex samples.     

Lanthanide transport in stabilized zirconias: interrelation between ionic radius and diffusion coefficient

The diffusion of all stable lanthanides was measured both in calcia stabilized zirconia (CSZ) and in yttria stabilized zirconia (YSZ) in the temperature range between 1,286 and 1,600 degrees C. The lanthanide diffusion coefficients obtained increase with increasing ionic radius. The experimental activation enthalpy of diffusion is near 6 eV for CSZ and between 4 and 5 eV for YSZ and is not strongly affected by the type of lanthanide. The results were correlated with defect energy calculations of the lanthanide diffusion enthalpy using the Mott-Littleton approach. An association enthalpy of cation vacancies with oxygen vacancies of about 1 eV (96 kJ/mol) was deduced in the case of CSZ, while there is no association in the case of YSZ. Furthermore, the change in diffusion coefficients can be correlated to the interaction parameter for the interaction between the lanthanide oxide with zirconia: The higher the interaction parameter, the higher the lanthanide diffusion coefficient.     

Conformational changes of strong polycations in the presence of divalent counterions and their influence upon the flocculation efficiency

The interaction between strong polycations, which possess the ammonium quaternary centers attached to an acrylic macromolecular chain derived from poly(N,N-dimethylaminoethyl methacrylate) (polycations Q_x), and divalent counterions was investigated by viscometry and turbidimetry. Conformational changes of polycations were influenced by the polycation charge density, counterion nature (SO₄²⁻ or S₂O₈²⁻) and concentration. The morphology of the polycation layers deposited onto silicon wafers has been studied by tapping mode atomic force microscopy, a strong influence of the polycation and ammonium persulfate concentration on the surface topography being observed. The optimum flocculation concentration of polycation decreased and the flocculation window increased in the presence of S₂O₈²⁻, in the destabilization of kaolin model dispersion. Removal of Congo Red from aqueous solution by the complex system formed between polycations and divalent counterions was also investigated. The behavior of polycations Q_x in separation processes was compared with that of one polycation containing 95 mol% N,N-dimethyl-2-hydroxypropyleneammonium chloride units in the backbone (PCA₅).     

The hydration of sodium dehydrocholate micelles

The hydration of micellised sodium dehydrocholate molecules was determined by viscosity measurements. It was found that there are 39 water molecules for each micellised surfactant molecule. About ten water molecules may be attributed to the hydration of the sodium carboxylate group. By assignation of two water molecules to each of the three carbonyl groups, the total hydration of a micellised sodium dehydrocholate molecule was estimated as about 16 water molecules. The remaining 23 water molecules per micellised sodium dehydrocholate molecule may be attributed to water trapped in the structure of micelles.     

Conformational and electronic study of dopamine interacting with the D2 dopamine receptor

We report an exhaustive conformational and electronic study on dopamine (DA) interacting with the D₂ dopamine receptor (D₂DR). For the first time, the complete surface of the conformational potential energy of the complex DA/D₂DR is reported. Such a surface was obtained through the use of QM/MM calculations. A detailed study of the molecular interactions that stabilize and destabilize the different molecular complexes was carried out using two techniques: Quantum Theory of Atoms in Molecules computations and nuclear magnetic shielding constants calculations. A comparative study of the behavior of DA in the gas phase, aqueous solution, and in the active site of D₂DR has allowed us to evaluate the degree of deformation suffered by the ligand and, therefore, analyze how rustic are the lock-key model and the induced fit theory in this case. Our results allow us to propose one of the conformations obtained as the “biologically relevant” conformation of DA when it is interacting with the D₂DR.