Evaluation of the separation characteristics of application-specific (pesticides and dioxins) open-tubular columns for gas chromatography

The solvation parameter model is used to characterize the retention properties of four application-specific open-tubular columns (Rtx-CLPesticides, Rtx-OPPesticides, Rtx-Dioxin and Rtx-Dioxin2) at five equally spaced temperatures over the range 60-140 degrees C. Cluster analysis is used to compare the system constants to a database of forty open-tubular columns characterized according to the same method. System constants differences and retention factor correlation plots are then used to determine selectivity differences between the application-specific columns and their nearest neighbors identified by cluster analysis. The Rtx-CLPesticides and Rtx-OPPesticides columns are shown to belong to the selectivity group containing poly(dimethylmethyltrifluoroprpylsiloxane) stationary phases with Rtx-OPPesticides having a similar selectivity to a poly(dimethylmethyltrifluoropropylsiloxane) stationary phase containing 20% methyltrifluoropropylsiloxane monomer (DB-200) and Rtx-CLPesticides separation properties for a stationary phase containing less than 20% methyltrifluoropropylsiloxane monomer. The Rtx-Dioxin and Rtx-Dioxin2 columns are located in the selectivity group dominated by the poly(dimethyldiphenylsiloxane) stationary phases containing less than 20% diphenylsiloxane monomer. The Rtx-Dioxin and Rtx-Dioxin2 columns are shown to be selectivity equivalent to a (5% phenyl) carborane-siloxane copolymer stationary phase (Stx-500) and a second generation silarylene-siloxane copolymer stationary phase containing dimethylsiloxane and diphenylsiloxane monomers (DB-XLB), respectively.     

A neurosteroid analogue photolabeling reagent labels the colchicine-binding site on tubulin: a mass spectrometric analysis

Previous studies have shown that the neurosteroid analogue, 6-Azi-pregnanolone (6-AziP), photolabels voltage-dependent anion channels and proteins of approximately 55 kDa in rat brain membranes. The present study used two-dimensional electrophoresis and nanoelectrospray ionization ion-trap mass spectrometry (nano-ESI-MS) to identify the 55 kDa proteins (isoelectric point 4.8) as isoforms of β-tubulin. This identification was confirmed by immunoblot and immunoprecipitation of photolabeled protein with anti-β-tubulin antibody and by the demonstration that 6-AziP photolabels purified bovine brain tubulin in a concentration-dependent pattern. To identify the photolabeling sites, purified bovine brain tubulin was photolabeled with 6-AziP, digested with trypsin, and analyzed by matrix-assisted laser desorption/ionization MS (MALDI). A 6-AziP adduct of TAVCDIPPR(m/z?= 1287.77), a β-tubulin specific peptide, was detected by MALDI. High-resolution liquid chromatography-MS/MS analysis identified that 6-AziP was covalently bound to cysteine 354 (Cys-354), previously identified as a colchicine-binding site. 6-AziP photolabeling was inhibited by 2-methoxyestradiol, an endogenous derivative of estradiol thought to bind to the colchicine site. Structural modeling predicted that neurosteroids could dock in this colchicine site at the interface between α- and β-tubulin with the photolabeling group of 6-AziP positioned proximate to Cys-354.     

Bleach gel: a simple agarose gel for analyzing RNA quality

RNA-based applications requiring high-quality, non-degraded RNA are a foundational element of many research studies. As such, it is paramount that the integrity of experimental RNA is validated prior to cDNA synthesis or other downstream applications. In the absence of expensive equipment such as microfluidic electrophoretic devices, and as an alternative to the costly and time-consuming standard formaldehyde gel, RNA quality can be quickly analyzed by adding small amounts of commercial bleach to TAE buffer-based agarose gels prior to electrophoresis. In the presence of low concentrations of bleach, the secondary structure of RNA is denatured and potential contaminating RNases are destroyed. Because of this, the 'bleach gel' is a functional approach that addresses the need for an inexpensive and safe way to evaluate RNA integrity and will improve the ability of researchers to rapidly analyze RNA quality.     

Non-Cayley Vertex-Transitive Graphs of Order Twice the Product of Two Odd Primes

For a positive integer n, does there exist a vertex-transitive graph Γ on n vertices which is not a Cayley graph, or, equivalently, a graph Γ on n vertices such that Aut Γ is transitive on vertices but none of its subgroups are regular on vertices? Previous work (by Alspach and Parsons, Frucht, Graver and Watkins, Marusic and Scapellato, and McKay and the second author) has produced answers to this question if n is prime, or divisible by the square of some prime, or if n is the product of two distinct primes. In this paper we consider the simplest unresolved case for even integers, namely for integers of the form n = 2pq, where 2 < q < p, and p and q are primes. We give a new construction of an infinite family of vertex-transitive graphs on 2pq vertices which are not Cayley graphs in the case where p ≡ 1 (mod q). Further, if p ? 1 (mod q), p ≡ q ≡ 3(mod 4), and if every vertex-transitive graph of order pq is a Cayley graph, then it is shown that, either 2pq = 66, or every vertex-transitive graph of order 2pq admitting a transitive imprimitive group of automorphisms is a Cayley graph.     

On the First Hitting Time of a One-dimensional Diffusion and a Compound Poisson Process

It is studied the first-passage time (FPT) of a time homogeneous one-dimensional diffusion, driven by the stochastic differential equation dX(t) = μ(X(t))dt + σ(X(t)) dB _t , X(0) = x ₀, through b + Y(t), where b > x ₀ and Y(t) is a compound Poisson process with rate λ > 0 starting at 0, which is independent of the Brownian motion B _t . In particular, the FPT density is investigated, generalizing a previous result, already known in the case when X(t) = μt + B _t , for which the FPT density is the solution of a certain integral equation. A numerical method is shown to calculate approximately the FPT density; some examples and numerical results are also reported.     

NMR and X-ray crystallography, complementary tools in structural proteomics of small proteins

NMR spectroscopy and X-ray crystallography, the two primary experimental methods for protein structure determination at high resolution, have different advantages and disadvantages in terms of sample preparation and data collection and analysis. It is therefore of interest to assess their complementarity when applied to small proteins. Structural genomics/proteomics projects provide an ideal opportunity to make such comparisons as they generate data in a systematic manner for large enough numbers of proteins to allow firm conclusions to be drawn. Here we report a comparison for 263 unique proteins screened by both NMR spectroscopy and X-ray crystallography in our structural proteomics pipeline. Only 21 targets (8%) were deemed amenable to both methods based on an initial 2D 15N-HSQC NMR spectrum and optimized crystallization trials. However, the use of both methods in the pipeline increased the total number of targets amenable to structure determination to 107, with 43 amenable to NMR only and 43 amenable to X-ray crystallographic methods only. We did not observe a correlation between 15N-HSQC spectral quality and the success of the same protein in crystallization screens. Similar results were found for an independent set of 159 proteins as reported in the accompanying paper by Snyder et al. Thus, we conclude that both methods are highly complementary, and in order to increase the number of proteins suited for structure determination, we suggest that both methods be used in parallel in screening of all small proteins for structure determination.     

Identification of Error Types in Preservice Teachers' Attempts to Create Fraction Story Problems for Specified Operations

The purpose of this research was to determine if recognizable error types exist in the work of preservice teachers required to create story problems for specific fraction operations. Students were given a particular single‐operation fraction expression and asked to do the calculation and then create a story problem that would require the use of both the expression and calculation to answer the story problem. Distinct error types, determined by mathematical and grammatical characteristics, were identified by the researchers. These error types were then used to analyze an additional set of work samples to determine frequency rates of error types. Future research will involve evaluating the efficacy of specific instructional methods with the goal of reducing the frequency of certain error types.     

Diagonally neighbour transitive codes and frequency permutation arrays

Constant composition codes have been proposed as suitable coding schemes to solve the narrow band and impulse noise problems associated with powerline communication, while at the same time maintaining a constant power output. In particular, a certain class of constant composition codes called frequency permutation arrays have been suggested as ideal, in some sense, for these purposes. In this paper we characterise a family of neighbour transitive codes in Hamming graphs in which frequency permutation arrays play a central rode. We also classify all the permutation codes generated by groups in this family.