Conversion of urea to hydrazine: Hofmann reaction or Favorskii analogue? Exploring reaction mechanism through isotopic labeling studies

The power of isotopic substitution for the elucidation of a reaction mechanism is illustrated with reactions named after Hofmann and Favorskii. These reactions have important roles in synthetic chemistry; therefore, a wide range of experiments involving isotopic labeling or kinetic isotope effects were employed to establish their mechanistic pathways. The concepts introduced by these investigations are drawn together with an isotopic labeling study of the oxidation of urea with hypohalites. The two mechanisms proposed for this reaction have been described as a Hofmann rearrangement and a nitrogen analogue of the Favorskii rearrangement.

Oxygen reduction reaction in ionic liquids: an overview

The oxygen reduction reaction has been the subject of intensive research during decades due to their importance in life processes such as biological respiration, and also as a cathodic process in energy storage devices (e.g. fuel cells and air batteries). Detailed reviews on the oxygen reduction reaction in aqueous and non-aqueous media are available in the literature but it is lacking in the case of ionic liquids. Therefore a comprehensive review on the oxygen reduction reaction (ORR) in ionic liquids is described in this chapter in order to compile the state of the art from a fundamental point of view and improve the current knowledge towards not only fundamental but also practical applications. The oxygen reduction reaction mechanism in neat imidazolium, pyrrolidinium, quaternary ammonium, and phosphonium-based ionic liquids, which mainly undergo one-electron pathway leading to the generation of superoxide anion (O2•-), is the main topic of this chapter. The reversibility of the O2/O2•- redox couple is highly dependent on the composition of the ionic liquid, as an example superoxide is more stable in the presence of aliphatic and alicyclic cations than in the presence of aromatic rings. Furthermore, the influence of protic and aprotic additives in the ORR mechanism is also explained in this chapter together with the influence in electrochemical parameters such as formal potential, E0'.

The emitting species formed by the oxidation of hydrazides with hypohalites or N-halosuccinimides

The chemiluminescence accompanying the oxidation of salicylic hydrazide (2-hydroxybenzoic acid hydrazide) with hypochlorite, hypobromite, N-chlorosuccinimide, N-bromosuccinimide or hydrogen peroxide with cobalt(II) matched the photoluminescence emission of salicylic acid. In a related reaction, the oxidation of a mixture of isoniazid and ammonia, a synergistic effect was observed. The chemiluminescence spectrum for this reaction matches that accompanying the oxidation of the hydrazide, rather than the oxidation of ammonia. These results were used to assess mechanisms proposed by previous authors.

Investigations into the analytical applications and fundamental chemistry of the chemiluminescent reactions of Tris(2,2'-bipyridyl)ruthenium(III) with certain Papaver Somniferum alkaloids and other related compounds

The reaction of tris(2,2’-bipyridyl)ruthenium(III) (Ru(bipy) ₃³⁺) with various analytes to generate chemiluminescence has been well documented. This investigation sought to undertake a chemiluminometic study of the reactions of Ru(bipy) ₃³⁺ with selected Papaver Somniferum alkaloids and specifically synthesised phenethylamines. The investigation, based on a kinetic study, primarily addressed the effect of varying reaction conditions (pH) on Ru(bipy) ₃³⁺ chemiluminescence production. To monitor these reactions, a batch chemiluminometer was specifically designed, fabricated and automated to conduct an extensive study on the selected compounds of interest. The instrumentation incorporated a custom built reaction cell and comprised an ‘on-line’ sample preparation system with which calibration standards could be automatically prepared. The instrumentation provided both time-independent (peak area) and time-dependent (kinetic profile) information. A novel approach to the stabilisation of Ru(bipy) ₃³⁺ as a chemiluminescencent reagent was also investigated and a recirculating system was employed with the batch chemiluminometer to provide a stable supply of Ru(bipy) ₃³⁺. Codeine, thebaine and 6-methoxy-codeine were the Papaver Somniferum alkaloids selected for this study and several N-methylated and N,N-dimethylated phenethylamines and methoxy-substituted phenetheylamines were also synthesised to investigate the affect of pH on the chemiluminescence emission efficiency. The versatility of the batch chemiluminometer facilitated the kinetic study of numerous analytes over a broad pH range. The exemplary performance of the chemiluminometer as an analytical instrument, was demonstrated by the calibration functions, based on peak area data, which exhibited excellent linearity and sensitivity. The estimated detection limits (3s) for the selected alkaloids were in the range 2 x 10^-9 M to 7 x 10^-9 at pH 5.0 and above, which compared favourably to detection limits for the same compounds determined using FIA. Relative standard deviations (n=5) for peak areas ranged between 1% to 5% with a mean of 3.1% for all calibration standards above 2.5 x 10^-8 M. Correlation between concentration and peak area, irrespective of pH and analyte was excellent, with all but two calibration functions having r-squared values greater than 0.990. The analytical figures of merit exemplified the precision and robustness of the reagent delivery and ‘on-line’ sample preparation, as well as the sensitivity of the system. The employment of the chemiluminometer for the measurement of total chemiluminescence emission (peak area) was in itself a feasible analytical technique, which generated highly reproducible and consistent data. Excellent analytical figures of merit, based on peak area, were similarly achieved for the phenethylamines. The effects of analyte structure on chemiluminescence activity was also investigated for the alkaloids and the phenethylamines. Subtle structural variations between the three alkaloids resulted in either a moderately reduced or enhanced total emission that was two or three fold difference only. A significant difference in reaction kinetics was observed between thebaine and codeine/6-methoxy-codeine, which was dependent upon pH. The time-dependent data, namely the observed rate constants for the initial rise in intensity and for the subsequent decay rate, were obtained by fitting a mathematical function (based on the postulated reaction mechanism) to the raw data. The determination of these rate constants for chemiluminescence reactions highlighted the feasibility for utilising such measurements for quantitative analytical applications. The kinetic data were used to discriminate between analyte responses in order to determine the concentrations of individual analytes in a binary mixture. A preliminary, multi-component investigation performed on a binary mixture of codeine and 6-methoxy-codeine (1:1) successfully determined the concentrations of these individual components using such rate constant measurements. Consequently, variations in kinetics resulted in a significant difference between the relative chemiluminescence response based on peak area measurements and the relative response base on peak height measurements obtained using FIA. With regards to the observed reactivity of secondary amines and tertiary amines, chemiluminescence peak area determinations confirmed the vital role of pH on reaction efficiency, which was governed by structural features and kinetics. The tertiary amines investigated generally produced a greater emission under acidic conditions than the corresponding secondary amines. However, the measured chemiluminescence responses were highly dependent upon pH, with similar peak areas obtained for both amine groups under slightly alkaline conditions.

Synthetic studies towards anthraquinones

The oxidation of substituted phenols with phenyliodonium diacetate in methanol was found to afford 2,4-cyclohexadienones, 2,5-cyclohexadienones or mixtures of isomers depending on the substrate being oxidized. A reaction mechanism was proposed for this oxidation which involved an intermediate aryloxenium ion. A strong correlation was observed between the experimentally determined product ratios and the results predicted by calculation of the LUMO coefficients of the proposed intermediates, Annulation of these cyclohexadienones with the anion derived from cyanophthalide afforded substituted anthraquinones in high yields. The chemistry relating to the annulation of Michael acceptors with phthalide anions was comprehensively reviewed. A mild selective method for the oxidation of hydroquinones to quinones using dibenzoyl peroxide and base is presented. A general synthetic approach to C-glycosylanthraquinones was presented, based on the annulation of a C-glycosylcyclohexadienone with the anion derived from cyanophthalide, A suitable precursor to a C-glycosylcyclohexadienone, 2-(2’,3’,4’,6’-tetra-0-acetyl-|3-D-glucopyranosyl)benzyloxybenzene, was prepared via the reaction of benzoylbromoglucose with 2-benzyloxyphenylmagnesium bromide, A group of molecules were prepared by a Marschalk reaction between /ewcoquinizarin and aldehydo-sugsrs. These compounds are potential bioreductive alkylating agents in which molecular simplicity can be achieved without overly sacrificing DNA binding ability.

Properties of an in vitro selected Pb2+ cleavage motif

The addition of Pb 2+ to a small RNA molecule consisting of an asymmetric internal loop of six nucleotides results in site-specific cleavage followed by hydrolysis of the 2′,3′-cyclic phosphate intermediate [Pan, T., & Uhlenbeck, O. C. (1992) Nature 358, 560-563]. Here we show that the reaction is highly specific for Pb 2+ and the cleavage rate increases exponentially with pH from 5.5 to 7.0, both in the presence and in the absence of Mg 2+. This suggests that the reaction mechanism involves Pb 2+ hydroxide acting as a base. Several sequence variants of the RNA are found to be equally active in both steps of the reaction, suggesting that they fold into a similar structure.

Computational simulation of the influence of inert particles on incomplete combustion of methane at a low air factor

It is well known that the gas–solid system plays a significant role in many industrial processes. It is a complex physical and chemical process, generally consisting of heat transfer, mass transfer, species diffusion, and chemical reactions. In this paper, the reaction of methane with air at a low air factor and the gas flow in a fluidized bed with 0.1 mm solid particles are computationally simulated to enable the study of the effect of the inert particles on the species diffusion and the chemical reactions. The reaction of methane and air is modeled by a two-step reaction mechanism that produces a continuous fluid phase composed of six gases (CH₄, CO, O₂, CO₂, H₂O, and N₂) and discrete solid particles in the reactor. The simulation results are compared with experiment and show that the finite rate model and the eddy dissipation model can well describe the reactions of gases in high-density gas–solid systems. The distribution of each gas and the particle behaviors are analyzed for incomplete combustion at different concentrations of loaded solid particles. The inert particles change the reactions by enhancing both the chemical kinetics and the species diffusion dynamics.

Simultaneous polymerization and crosslinking for the synthesis of molecular-level graphene oxide-polyacryl amide-CeOx composites

Synthesis of molecular-level multiple-component composites are particularly challenging due to the lack of direct bonding among different components. In this study, molecular-level graphene oxide (GO)-polyacryl amide (PAM)-CeOx composites were successfully synthesized, using the simultaneous polymerization and crosslinking strategy. Attenuated total reflection Fourier transform infrared (ATR-FTIR) and nuclear magnetic resonance (NMR) techniques confirmed that polyacryl amide (PAM) chains were successfully grafted onto the surface of GO. X-ray photoelectron spectroscopic (XPS) and X-ray diffraction (XRD) analyses further revealed the characteristic signals of cerium elements and CeO2 phase respectively. Scanning electron microscopy (SEM) showed that the surface morphology of the GO-PAM-CeOx composites was substantially thicker and rougher than those of the original GO. Further exploration of the reaction mechanism clearly demonstrate the existence of strong chelating interaction among PAM chains and Ce(IV) ions. In particular, the polymerization of acryl amide monomers and the crosslinking reaction between PAM and Ce(IV) or Ce(III) ions were realized simultaneously, leading to the final formation of molecular-level GO-PAM-CeOx composites. Moreover, the as-synthesized GO-PAM-CeOx composites were capable of effectively decomposing Rhodamine B under simulated sunlight, making it a potential candidate as a new photo catalyst. To sum up, this report demonstrates the potential utility of simultaneous polymerization and crosslinking method for the synthesis of other multiple-component composites at molecular-level.

Prediction interval-based modelling of polymerization reactor: a new modelling strategy for chemical reactors

Precise and reliable modelling of polymerization reactor is challenging due to its complex reaction mechanism and non-linear nature. Researchers often make several assumptions when deriving theories and developing models for polymerization reactor. Therefore, traditional available models suffer from high prediction error. In contrast, data-driven modelling techniques provide a powerful framework to describe the dynamic behaviour of polymerization reactor. However, the traditional NN prediction performance is significantly dropped in the presence of polymerization process disturbances. Besides, uncertainty effects caused by disturbances present in reactor operation can be properly quantified through construction of prediction intervals (PIs) for model outputs. In this study, we propose and apply a PI-based neural network (PI-NN) model for the free radical polymerization system. This strategy avoids assumptions made in traditional modelling techniques for polymerization reactor system. Lower upper bound estimation (LUBE) method is used to develop PI-NN model for uncertainty quantification. To further improve the quality of model, a new method is proposed for aggregation of upper and lower bounds of PIs obtained from individual PI-NN models. Simulation results reveal that combined PI-NN performance is superior to those individual PI-NN models in terms of PI quality. Besides, constructed PIs are able to properly quantify effects of uncertainties in reactor operation, where these can be later used as part of the control process. © 2014 Taiwan Institute of Chemical Engineers.

Studies on the mechanism of the peroxyoxalate chemiluminescence reaction Part 1. Confirmation of 1,2-dioxetanedione as an intermediate using 13C nuclear magnetic resonance spectroscopy

A simple model peroxyoxalate chemiluminescence system was monitored directly across a range of temperatures (from −80 to +20 °C) using ¹³C nuclear magnetic resonance spectroscopy. These experiments were made possible by the utilisation of ¹³C doubly labelled oxalyl chloride, which was reacted with anhydrous hydrogen peroxide in dry tetrahydrofuran. Ab initio quantum calculations were also performed to estimate the ¹³C nuclear magnetic resonance (NMR) shift of the most commonly postulated key intermediate 1,2-dioxetanedione and this data, in concert with the spectroscopic evidence, confirmed its presence during the reaction.

Studies on the mechanism of the peroxyoxalate chemiluminescence reaction : part 2, further identification of intermediates using 2D EXSY 13C nuclear magnetic resonance spectroscopy

Further consideration has been given to the reaction pathway of a model peroxyoxalate chemiluminescence system. Again utilising doubly labelled oxalyl chloride and anhydrous hydrogen peroxide, 2D EXSY ¹³C nuclear magnetic resonance (NMR) spectroscopy experiments allowed for the characterisation of unknown products and key intermediate species on the dark side of the peroxyoxalate chemiluminescence reaction. Exchange spectroscopy afforded elucidation of a scheme comprised of two distinct mechanistic pathways, one of which contributes to chemiluminescence. ¹³C NMR experiments carried out at varied reagent molar ratios demonstrated that excess amounts of hydrogen peroxide favoured formation of 1,2-dioxetanedione: the intermediate that, upon thermolysis, has been long thought to interact with a fluorophore to produce light.

Investigation of the postcure reaction and surface energy of epoxy resins using time-of-flight secondary ion mass spectrometry and contact-angle measurements

Time-of-flight secondary ion mass spectrometry (ToF-SIMS) was used to investigate correlations between the molecular changes and postcuring reaction on the surface of a diglycidyl ether of bisphenol A and diglycidylether of bisphenol F based epoxy resin cured with two different amine-based hardeners. The aim of this work was to present a proof of concept that ToF-SIMS has the ability to provide information regarding the reaction steps, path, and mechanism for organic reactions in general and for epoxy resin curing and postcuring reactions in particular. Contact-angle measurements were taken for the cured and postcured epoxy resins to correlate changes in the surface energy with the molecular structure of the surface. Principal components analysis (PCA) of the ToFSIMS positive spectra explained the variance in the molecular information, which was related to the resin curing and postcuring reactions with different hardeners and to the surface energy values. The first principal component captured information related to the chemical phenomena of the curing reaction path, branching, and network density based on changes in the relative ion density of the aliphatic hydrocarbon and the C₇H₇O⁺ positive ions. The second principal component captured information related to the difference in the surface energy, which was correlated to the difference in the relative intensity of the C_xH_yN_z⁺ ions of the samples. PCA of the negative spectra provided insight into the extent of consumption of the hardener molecules in the curing and postcuring reactions of both systems based on the relative ion intensity of the nitrogen-containing negative ions and showed molecular correlations with the sample surface energy.

Analysis on relationship between extreme pathways and correlated reaction sets

Background: Constraint-based modeling of reconstructed genome-scale metabolic networks has been successfully applied on several microorganisms. In constraint-based modeling, in order to characterize all allowable phenotypes, network-based pathways, such as extreme pathways and elementary flux modes, are defined. However, as the scale of metabolic network rises, the number of extreme pathways and elementary flux modes increases exponentially. Uniform random sampling solves this problem to some extent to study the contents of the available phenotypes. After uniform random sampling, correlated reaction sets can be identified by the dependencies between reactions derived from sample phenotypes. In this paper, we study the relationship between extreme pathways and correlated reaction sets.

Results: Correlated reaction sets are identified for E. coli core, red blood cell and Saccharomyces cerevisiae metabolic networks respectively. All extreme pathways are enumerated for the former two metabolic networks. As for Saccharomyces cerevisiae metabolic network, because of the large scale, we get a set of extreme pathways by sampling the whole extreme pathway space. In most cases, an extreme pathway covers a correlated reaction set in an 'all or none' manner, which means either all reactions in a correlated reaction set or none is used by some extreme pathway. In rare cases, besides the 'all or none' manner, a correlated reaction set may be fully covered by combination of a few extreme pathways with related function, which may bring redundancy and flexibility to improve the survivability of a cell. In a word, extreme pathways show strong complementary relationship on usage of reactions in the same correlated reaction set.

Conclusion: Both extreme pathways and correlated reaction sets are derived from the topology information of metabolic networks. The strong relationship between correlated reaction sets and extreme pathways suggests a possible mechanism: as a controllable unit, an extreme pathway is regulated by its corresponding correlated reaction sets, and a correlated reaction set is further regulated by the organism's regulatory network.

Mechanism of permanganate chemiluminescence

Spectroscopic and synthetic methods have been exploited to deduce the mechanism for acidic potassium permanganate chemiluminescence. We have employed electron paramagnetic resonance (EPR) spectroscopy with a continuous flow assembly to monitor the formation of radical intermediates in real time generated from substrate oxidation by manganese(VII). These transient species react with manganese(III) in solution to produce the  previously characterized manganese(II)* emission source. Using UV-vis, EPR, attenuated total reflection (ATR)-FTIR, and chemiluminescence spectroscopies, we have established that there are two distinct enhancement mechanisms that in combination afford a 50-fold increase in emission intensity when the reaction is conducted in the presence of phosphate oligomers. In addition to preventing disproportionation of the manganese(III) precursor, the phosphate oligomers form protective "cagelike” structures around the manganese(II)* emitter, thus preventing nonradiative relaxation pathways.

Direct synthesis, growth mechanism, and optical properties of 3D AlN nanostructures with urchin shapes

Aluminum nitride (AƖN) nanostructures have shown novel physical and chemical properties that are essential for technological applications. We report a vapor-solid growth of novel three-dimensional (3D) A1N urchin-like nanostmcture in DC arc plasma via the direct reaction between Al vapor and N₂ gas without any catalyst or template. The as-prepared 3D A1N nanostructures which have urchin-like shapes consist of numerous microdaggers with sharp tips and lengths of up to several micrometers and widths of 0.5-2 µm. A growth mechanism of A1N nanostructures with urchin shapes was suggested and explained in detail. The optical properties of the AƖN nanostructures with urchin shapes were also studied with photoluminescence spectrum, which reveals a broad emission, suggesting potential applications in electronic and optoelectronic nanodevices.