Strategies for examination of Alzheimer’s disease amyloid precursor protein isoforms

We describe a proteomics procedure using bioinformatics, immunoprecipitation, two-dimensional gel electrophoresis, Western blotting, in-gel digestion, LC–MS, MALDI–MS, and MS–MS for isolation and identification of amyloid precursor protein (APP) isoforms APP₆₉₅, APP₇₅₁, and APP₇₇₀. Retinoic acid-induced Ntera 2 cell line, derived from a human teratocarcinoma cells, was the in-vitro source of APP. Initial isolation of whole APP was performed by immunoprecipitation, using AB10, a monoclonal antibody raised to amino acids 1–17 of the β-amyloid peptide sequence, which is present in all three alpha secretase-cleaved isoforms of interest. The next stage was separation of whole APP into its isoform components by two-dimensional gel electrophoresis. Because of low APP concentrations, detection by the usual staining methods, for example Sypro Ruby, able to detect low picomole concentrations, did not enable visualisation of the isoforms. Western analysis, however, enabled primary detection of APP, because of the inherent sensitivity of antibodies raised to specific isoform regions. This initial visualization acted as a template for excision of isoforms from 2D gels, which were then subjected to peptide mass mapping. Initial theoretical digestion of each isoform revealed the presence of specific peptides, which were then used as “tags” for isoform detection.     

A photo-oxidation procedure using UV radiation/H2O2 for decomposition of wine samples — Determination of iron and manganese content by flame atomic absorption spectrometry

This paper proposes the use of photo-oxidation with UV radiation/H₂O₂ as sample pretreatment for the determination of iron and manganese in wines by flame atomic absorption spectrometry (FAAS). The optimization involved the study of the following variables: pH and concentration of buffer solution, concentrated hydrogen peroxide volume and irradiation time. The evaluation of sample degradation was monitored by measuring the absorbance at the maximum wavelength of red wine (530 nm). Using the experimental conditions established during the optimization (irradiation time of 30 min, oxidant volume of 2.5 mL, pH 10, and a buffer concentration of 0.15 mol L^− 1), this procedure allows the determination of iron and manganese with limits of detection of 30 and 22 μg L^− 1, respectively, for a 5 mL volume of digested sample. The precision levels, expressed as relative standard deviation (RSD), were 2.8% and 0.65% for iron and 2.7% and 0.54% for manganese for concentrations of 0.5 and 2.0 mg L^− 1, respectively. Addition/recovery tests for evaluation of the accuracy were in the ranges of 90%–111% and 95%–107% for iron and manganese, respectively. This digestion procedure has been applied for the determination of iron and manganese in six wine samples. The concentrations varied from 1.58 to 2.77 mg L^− 1 for iron and from 1.30 to 1.91 mg L^− 1 for manganese. The results were compared with those obtained by an acid digestion procedure and determination of the elements by FAAS. There was no significant difference between the results obtained by the two methods based on a paired t-test (at 95% confidence level).     

Micellar electrokinetic biofluid analysis of biogenic amines using on-line sample concentration and UV laser-induced native fluorescence detection

A simple and sensitive sweeping micellar electrokinetic chromatography method coupled with UV laser-induced native fluorescence detection has been developed for quantitative analysis of biogenic amines in biofluids. The background electrolyte comprised 30 mmol L⁻¹ phosphoric acid and 20 mmol L⁻¹ sodium dodecyl sulfate. The concentration limits of detection of analytes using sweeping-micellar electrokinetic chromatography (sweeping-MEKC) were in the range 7–100 nmol L⁻¹, which were 250–3600-fold improvement for dopamine, DOPA and epinephrine compared with conventional capillary zone electrophoresis. An improvement of approximately 20-fold was observed for all analytes compared with typical micellar electrokinetic chromatography conditions. Baseline separation was achieved for the all analytes within 12 min and migration-time and peak-area repeatability were better than RSD 0.35% and 5.68%, respectively. The developed method was applied to measure the biogenic amines in biofluids extracted from wheat phloem sap, human plasma and human urine.     

Solid-state bonding technique for template-stripped ultraflat gold substrates

A simple procedure using gold diffusion bonding for the preparation of template-stripped gold (TSG) surfaces is described. TSG surfaces are useful for surface studies because a very consistent flat gold surface with few defects can be easily prepared. We have developed a method of producing TSG surfaces that relies only on gold diffusion bonding rather than epoxies. The resulting substrates are free from concerns of solvent compatibility, heat stability, and impurities. Bonding of centimeter-sized substrates is performed at 300 degrees C for 2 h using a vise and aluminum foil.     

Copper(I/II) complexes of a bis(tetrathiafulvalene)-2,2'-bipyridine: synthesis, characterization, magnetic and electrochemical properties

The coordination ability of the electroactive TTF-based chelating ligand 5,5'-bis(4,5-bis(thiomethyl)-4'-carbamoyltetrathiafulvalene)-2,2'-bipyridine (L) has been tested with Cu(I) and Cu(II) centres. [(L)2Cu(I)](PF6), [(L)2Cu(II)](OTf)2 and [(L)Cu(II)(DMF)3](OTf)2 have been synthesized. A single-crystal X-ray analysis was performed on [(L)Cu(II)(DMF)3](OTf)2, showing a distorted octahedral geometry around the Cu(II) centre, and the formation of dimeric units in the solid state through weak coordination in apical position of an amide oxygen atom from a neighbouring complex. Magnetic data show that the paramagnetic metallic centres are isolated, in agreement with the solid-state structure. Electrochemical measurements were performed on the three complexes and in all cases the Cu(I)/Cu(II) and TTF/TTF+*/TTF2+ redox processes were observed.     

Experimental and modeling studies of B atom number density distributions in hot filament activated B2H6/H2 and B2H6/CH4/H2 gas mixtures

Experimental and modeling studies of the gas-phase chemistry occurring in dilute, hot filament (HF) activated B2H6/H2 and B2H6/CH4/H2 gas mixtures are reported. Spatially resolved relative number densities of B (and H) atoms have been measured by resonance enhanced multiphoton ionization methods, as a function of process conditions (e.g. the HF material and its temperature, the B2H6/H2 mixing ratio, and the presence (or not) of added CH4). Three-dimensional modeling of the H/B chemistry prevailing in such HF activated gas mixtures using a simplified representation of the gas phase chemistry succeeds in reproducing all of the experimentally observed trends, and in illustrating the key role of the "H-shifting" reactions BHx + H <= => BHx-1 + H2 (x = 1-3) in enabling rapid interconversion between the various BHx (x = 0-3) species. CH4 addition, at partial pressures appropriate for growth of boron-doped diamond by chemical vapor deposition methods, leads to approximately 30% reduction in the measured B atom signal near the HF. The modeling suggests that this is mainly due to concomitant H atom depletion near the HF, but it also allows us a first assessment of the possible contributions from B/C coupling reactions upon CH4 addition to HF activated B2H6/H2 gas mixtures.     

Hydrogenation and hydrocarbonation and etching of single-walled carbon nanotubes

We present a systematic experimental investigation of the reactions between hydrogen plasma and single-walled carbon nanotubes (SWNTs) at various temperatures. Microscopy, infrared (IR) and Raman spectroscopy, and electrical transport measurements are carried out to investigate the properties of SWNTs after hydrogenation. Structural deformations, drastically reduced electrical conductance, and an increased semiconducting nature of SWNTs upon sidewall hydrogenation are observed. These changes are reversible upon thermal annealing at 500 degrees C via dehydrogenation. Harsh plasma or high temperature reactions lead to etching of nanotubes likely via hydrocarbonation. Smaller SWNTs are markedly less stable against hydrocarbonation than larger tubes. The results are fundamental and may have implications to basic and practical applications including hydrogen storage, sensing, band gap engineering for novel electronics, and new methods of manipulation, functionalization, and etching of nanotubes.     

Genome mining in Streptomyces coelicolor: molecular cloning and characterization of a new sesquiterpene synthase

The terpene synthase encoded by the SCO5222 (SC7E4.19) gene of Streptomyces coelicolor was cloned by PCR and expressed in Escherichia coli as an N-terminal-His6-tag protein. Incubation of the recombinant protein, SCO5222p, with farnesyl diphosphate (1, FPP) in the presence of Mg(II) gave a new sesquiterpene, (+)-epi-isozizaene (2), whose structure and stereochemistry were determined by a combination of 1H, 13C, COSY, HMQC, HMBC, and NOESY NMR. The steady-state kinetic parameters were kcat 0.049 +/- 0.001 s-1 and a Km (FPP) of 147 +/- 14 nM. Individual incubations of recombinant epi-isozizaene synthase with [1,1-2H2]FPP (1a), (1R)-[1-2H]-FPP (1b), and (1S)-[1-2H]-FPP (1c) and NMR analysis of the resulting deuterated epi-isozizaenes supported an isomerization-cyclization-rearrangement mechanism involving the intermediacy of (3R)-nerolidyl diphosphate (3).     

Surfactant and electric field strength effects on surface tension at liquid/liquid/solid interfaces

We performed a series of experiments designed to elucidate the effects of the presence of sodium dodecyl sulfate (SDS) surfactant and an applied electrical field on the wetting behavior in a system containing a sessile droplet of phenylmethyl polysiloxane (PMPS) oil on a polished stainless steel surface submersed in aqueous solution. The voltage difference ranged from -3 to +3 V, which is at least 3 orders of magnitude smaller than from comparable recent work. We report the measured equilibrium contact angle of the droplet as a function of surfactant concentration and field strength. We then modeled the system. We solved the Laplace equation to obtain the 3D field within our system. We expanded the three surface tensions (oil droplet-aqueous solution (oa), oil droplet-metal surface (os), and aqueous solution-metal surface (as)) in a Taylor series with respect to surfactant concentration and local field strength. We use these three surface tensions in Young's equation to obtain the theoretical contact angle of the organic droplet. We demonstrate that the large changes in contact angle due to the simultaneous presence of small concentrations of surfactant and small voltage differences can be accounted for by changes in the oa and as surface tensions.     

Electron density redistribution accounts for half the cooperativity of alpha helix formation

The energy of alpha helix formation is well known to be highly cooperative, but the origin and relative importance of the contributions to helical cooperativity have been unclear. Here we separate the energy of helix formation into short range and long range components by using two series of helical dimers of variable length. In one dimer series two monomeric helices interact by forming hydrogen bonds, while in the other they are coupled only through long range, primarily electrostatic interactions. Using Density Functional Theory, we find that approximately half of the cooperativity of helix formation is due to electrostatic interactions between residues, while the other half is due to nonadditive many-body effects brought about by redistribution of electron density with helix length.