High-performance liquid chromatography profiling of the major carotenoids in Arabidopsis thaliana leaf tissue

Carotenoids are extremely sensitive to a variety of physico-chemical attacks which may have a profound effect on their characteristic properties, thereby influencing the accurate identification and quantification of individual compounds. In this light, a comprehensive summary of the pitfalls encountered and precautions to be administered during handling and storage of authentic standards and samples was found to be incomplete. Furthermore, acceptable baseline separation of trans-lutein from trans-zeaxanthin and between the cis- and trans-forms of neoxanthin and violaxanthin has not been satisfactorily demonstrated. Hence the most optimal sample preparation and analytical steps were determined and a sensitive and reproducible method for the quantitative HPLC profiling of the principal carotenoids found in plant leaf tissue was developed. A reverse-phase C(30) column with a binary mobile solvent system was used for the baseline separation of eight of the major carotenoids and the two chlorophylls (a and b) within 18min. These compounds were identified via the use of authentic standards, their spectral characteristics and HPLC-atmospheric pressure chemical ionization (APCI)-mass spectrometry (MS) confirmation. This method has been successfully applied for the quantification of plant pigments in Arabidopsis thaliana wild-type (WT) leaf tissue and in two A. thaliana non-photochemical mutants, namely npq1 and npq2. These mutants have previously been well-characterised and provided valuable reference data as well as acting as internal controls for the assessment of our new method.     

A direct route to polythiophenes displaying lateral substituents: Easy one‐step synthesis and polymerization of thiophene monomers substituted by a dimethylenecarboxylate (CH2CH2COOR) appendage on the 3‐position

Thiophene monomers displaying a dimethylenecarboxylate (CH₂CH₂COOR) substituent on the 3‐position of the aromatic ring can be easily obtained and in one step from the electrochemically induced reaction of 3‐bromothiophene with the corresponding acrylate (CH₂?CHCOOR). The synthesis of the ethyl ester monomer, of related 2,5‐dihalogenothiophenes, and their polymerization are reported. Despite the surprisingly low solubilities displayed by the polymers, a full spectroscopic characterization could be performed and the data fully analyzed. Oxidative polymerizations (FeCl₃ or electropolymerization) yield a regioirregular polythiophene, with 60–70% of head‐to‐tail diads. Both experimental and theoretical results suggest that the nonconjugated ester plays a very minor role—if any—in the polymerizations under oxidative conditions, but has a significant influence on the polymer properties. Preliminary attempts to polymerize the dihalogenothiophenes under reductive conditions were hampered by the even lower solubilities exhibited by the regioregular oligomers. © 2011 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem, 2012     

Mechanism and kinetics of the water-assisted formic acid + OH reaction under tropospheric conditions

In this work, we have revisited the mechanism of the formic acid + OH radical reaction assisted by a single water molecule. Density functional methods are employed in conjunction with large basis sets to explore the potential energy surface of this radical-molecule reaction. Computational kinetics calculations in a pseudo-second-order mechanism have been performed, taking into account average atmospheric water concentrations and temperatures. We have used this method recently to study the single water molecule assisted H-abstraction by OH radicals (Iuga, C.; Alvarez-Idaboy, J. R.; Reyes, L.; Vivier-Bunge, A. J. Phys. Chem. Lett. 2010, 1, 3112; Iuga, C.; Alvarez-Idaboy, J. R.; Vivier-Bunge, A. Chem. Phys. Lett. 2010, 501, 11; Iuga, C.; Alvarez-Idaboy, J. R.; Vivier-Bunge, A. Theor. Chem. Acc. 2011, 129, 209), and we showed that the initial water complexation step is essential in the rate constant calculation. In the formic acid reaction with OH radicals, we find that the water-acid complex concentration is small but relevant under atmospheric conditions, and it could in principle be large enough to produce a measurable increase in the overall rate constant. However, the water-assisted process occurs according to a formyl hydrogen abstraction, rather than abstraction of carboxylic hydrogen as in the water-free case. As a result, the overall reaction rate constant is considerably smaller. Products are different in the water-free and water-assisted processes.     

On the mechanism of the OH initiated oxidation of acetylene in the presence of O2 and NO x

The mechanism of the oxidation of acetylene, in the presence of O₂ and NO _x , has been studied. Different levels of theory have been tested for the first step of the mechanism: the acetylene + OH radical reaction. Based on these results the meta-hybrid functional MPWB1K has been chosen for modeling all the other steps involved in the oxidation of acetylene. Different reaction paths have been considered and the one leading to glyoxal formation and OH regeneration is predicted to be the main channel, independently of the presence of NO _x . Two different mechanisms were modeled to account for formic acid formation, both of them involving cyclic intermediates. According to the computed activation free energies, the three-membered intermediate seems to be more likely to occur than the four-membered one. However, reaction barriers are very high and only a very small proportion of formic acid is expected to be formed through such intermediates. In the presence of NO _x , considered in this work for the first time, the main product of the tropospheric oxidation of acetylene is also expected to be glyoxal.     

Importance of using highly pure internal standards for successful liquid chromatography/tandem mass spectrometric bioanalytical assays

Internal standards (IS) with similar physicochemical properties to the analyte provide multiple advantages in liquid chromatography/tandem mass spectrometric (LC/MS/MS) bioanalytical methods such as: reduction of the analysis run time, improvement in the intra‐injection reproducibility, impact reduction of matrix and ionization effects. However, it is important to evaluate the purity of the IS prior to their use. Indeed, a minor impurity in the IS may lead to an important issue during bioanalytical method development. Stable labelled internal standards are usually appropriate IS for bioanalysis. The use of oxycodone‐D3, ursodiol‐D5 and atovaquone‐D4 as internal standards in three different bioanalytical methods was evaluated. During oxycodone, oxymorphone and noroxycodone simultaneous quantification method development, oxymorphone was identified as a contaminant in oxycodone‐D3. Since the limit of quantification for oxymorphone was very low (10 pg/mL), the presence of an even low percentage of oxymorphone in oxycodone‐D3 leads to the change of the stable labelled IS for an analogue, ethylmorphine. 23‐Nordeoxycholic acid was preferred to ursodiol‐D5 as internal standard for the ursodiol, tauroursodiol and glycoursodiol simultaneous quantification method. Indeed, more than 7% of ursodiol was identified in the ursodiol‐D5 which could not be bypassed by decreasing the IS concentration without compromising the linearity. An atovaquone‐D4 reference standard revealed the non‐negligible presence of atovaquone‐D5 to atovaquone‐D8 that has a large impact on the method validation. Therefore, atovaquone‐D4 was sent for recertification since its isotopic purity was found to be much less than the isotopic purity mentioned on its certificate of analysis. Consequently, during bioanalytical method development, the purity of the IS should be scrutinized. Copyright © 2009 John Wiley & Sons, Ltd.     

Morphological shape characterization: Application to oxalate crystals

The characterization of the concave crystal shapes obtained during precipitation in a well mixed reactor of alkaline earth and transition metal oxalates by means of a morphological spectral analysis method is proposed. The method is based on series of openings performed on the crystal outline and on its complement with respect to its convex hull. Four parameters are used to describe and classify the shapes. The method can be applied to any concave shape.     

Probabilistic assessment for a sample to be radioactive or not: application to radioxenon analysis

When a net count value is below the type 1 error critical limit it is customary to declare that the activity is “below the detection limit”. The content of this declaration is particularly impoverished, incapable for example of discriminating between a net measurement just below the critical limit, but positive, and a negative net measurement, two types of information that it is legitimate and intuitive to think do not have the same weight of information. In the case of a spectral measurement of ^131mXe and ^133mXe certain information is available according to the various X and gamma emissions, which might all be below their respective critical limits. We shall see that a Bayesian probabilistic approach can be used, without considering the critical limits, to obtain anti-correlated maximum likelihood values taking all the information into account jointly and to obtain powerful and pertinent information in the form of the absolute probability that the sample contains ^131mXe and/or ^133mXe, all possible activity values combined. Conversely, of course, this is used immediately to deduce the probability that the sample does not contain ^131mXe and/or ^133mXe. This information enables the customary critical limit to be ignored.     

Theoretical Analysis of Reactions between Phosphanylnitrenes and Boranes: The Fate of the Adducts

Ab initio molecular orbital calculations have been carried out to determine the minimum-energy pathways and thereby to probe the mechanism of reactions between phosphanylnitrenes (R(1)R(2)P&tbd1;N, R(1), R(2) = H, F) and boranes (H(2)XB, X = H, F, CH(3), and C(2)H(5)). Geometries have been determined using the MP2/6-31G(d,p) model, while relative energies have been estimated using, depending on the size of the system, the quadratic configuration interaction model (QCISD and QCISD(T)) with various basis sets including 6-31G(d,p), 6-311G(d,p), and 6-311++G(d,p). The stability of the primary complex adduct is strongly dependent on the substituents of the boranes. When the borane bears a H atom, the primary adduct is not at all stable and readily collapses to an amine isomer via a H-shift from B to N. This shift becomes more difficult if the substituent is F or CH(3). In the F case, a phosphorane isomer, owing to the strength of the P-F bond, turns out to be favored. When non-hydrogen boranes (BF(3) and B(CH(3) )(3) for example) could be used, the primary adducts could be stabilized and even exist as discrete intermediates. F substituents on the nitrene show no significant qualitative effect. In the H(2)PN + H(2)BC(2)H(5) reaction, a retro-ene reaction of the adduct directly gives rise to an amine product via a five-membered transition structure. In the reverse reaction of a HX molecule plus an iminoborane (RB&tbd1;N-PR(1)R(2) ), both 1,2-addition to B and N and 1,3-addition to B and P reactions are possible.     

Non-alkane behavior of cyclopropane and its derivatives: characterization of unconventional hydrogen bond interactions

Eight cyclopropane derivatives (Δ − R) have been modeled, with R = −H, −CH₃, −NH₂, −C ≡ CH, −C ≡ CCH₃, −OH, −F and −C ≡ N. All geometries have been fully optimized at the MP2/ AUG-cc-pVTZ level of calculations. Natural bond orbital analyses reveal extra p character (sp^λ, λ > 3) in the C-C bonds of the cyclopropyl rings. The banana-like σ _CC bonds in the rings are described in detail. Alkene-like complexes between Δ − R molecules and hydrogen fluoride are identified. These weakly bonded complexes are formed through unconventional hydrogen bond interactions between the hydrogen atom in the HF molecule and the carbon–carbon bonds in the cyclopropane ring. A topological analysis of the electronic charge density and its Laplacian has been used to characterize the interactions. The possible relevance of such complexes in the modeling of substrate–receptor interactions in some anti-AIDS drugs is discussed. Contribution to the Serafin Fraga Memorial Issue.     

Accurate electron density and one-electron properties for the beryllium atom

An accurate analytical electron density for the beryllium atom is obtained by using a fast and systematic method recently developed and tested for the neon atom. Asymptotic conditions both at the nucleus and at large distances are obeyed. A point-by-point comparison between our density and the one obtained from an almost “exact” configuration interaction wave function shows that differences are less than 0.5% for r between 0 and 5 bohrs and less than 1 % up to 9 bohrs. The accuracy of the density is also assessed by comparing results of density moments and x-ray scattering factors.