Effects of photochemical aging on the molecular composition of organic aerosols derived from agricultural biomass burning in whole combustion process

Biomass burning organic aerosols (BBOA) are key components of atmospheric particulate matter, yet the effects of aging process on their chemical composition and related properties remain poorly understood. In this study, fresh smoke emissions from the combustion of three types of agricultural biomass residues (rice, maize, and wheat straws) were photochemically aged in an oxidation flow reactor. The changes in BBOA composition were characterized by offline analysis using ultrahigh performance liquid chromatography coupled with Orbitrap mass spectrometry. The BBOA molecular composition varied dramatically with biomass type and aging process. Fresh and aged BBOA were predominated by CHO and nitrogen-containing CHON, CHN, and CHONS species, while with very few CHOS and other non‑oxygen species. The signal peak area variations revealed that individual molecular species underwent dynamic changes, with 77-81 % of fresh species decreased or even disappeared and 33-46 % of aged species being newly formed. A notable increase was observed in the number and peak area of CxHyO≥6 compounds in aged BBOA, suggesting that photochemical process served as an important source of highly oxygenated species. Heterocyclic CxHyN2 compounds mostly dominated in fresh CHN species, whereas CxHyN1 were more abundant in aged ones. Fragmentation and homologs oxidation by addition of oxygen-containing functional groups were important pathways for the BBOA aging. The changes in BBOA composition with aging would have large impacts on particle optical properties and toxicity. This study highlights the significance of photochemical aging process in altering chemical composition and related properties of BBOA.

Histidine-assisted reduction of arylnitrenes upon photo-activation of phenyl azide chromophores in GFP-like fluorescent proteins

The photochemically active sites of the proteins sfGFP66azF and Venus66azF, members of the green fluorescent protein (GFP) family, contain a non-canonical amino acid residue p-azidophenylalanine (azF) instead of Tyr66. The light-induced decomposition of azF at these sites leads to the formation of reactive arylnitrene (nF) intermediates followed by the formation of phenylamine-containing chromophores. We report the first study of the reaction mechanism of the reduction of the arylnitrene intermediates in sfGFP66nF and Venus66nF using molecular modeling methods. The Gibbs energy profiles for the elementary steps of the chemical reaction in sfGFP66nF are computed using molecular dynamics simulations with quantum mechanics/molecular mechanics (QM/MM) potentials. Structures and energies along the reaction pathway in Venus66nF are evaluated using a QM/MM approach. According to the results of the simulations, arylnitrene reduction is coupled with oxidation of the histidine side chain on the His148 residue located near the chromophore.

Mechanistic and Kinetic Insights into OH-Initiated Atmospheric Oxidation of Hymexazol: A Computational Study

Hymexazol is a volatile fungicide widely used in agriculture, causing its abundance in the atmosphere; thus, its atmospheric fate and conversion are of great importance when assessing its environmental impacts. Herein, we report a theoretical kinetic mechanism for the oxidation of hymexazol by OH radicals, as well as the subsequent reactions of its main products with O2 and then with NO by using the Rice-Ramsperger-Kassel-Marcus-based Master equation kinetic model on the potential energy surface explored at the ROCBS-QB3//M06-2X/aug-cc-pVTZ level. The predicted total rate constants ktotal(T, P) for the reaction between hymexazol and OH radicals show excellent agreement with scarcely available experimental values (e.g., 3.6 × 10-12 vs (4.4 ± 0.8) × 10-12 cm3/molecule/s at T = 300 K and P = 760 Torr); thus, the calculated kinetic parameters can be confidently used for modeling/simulation of N-heterocycle-related applications under atmospheric and even combustion conditions. The model shows that 3,4-dihydroxy-5-methyl-4,5-dihydro-1,2-oxazol-5-yl (IM2), 3,5-dihydroxy-5-methyl-4,5-dihydro-1,2-oxazol-4-yl (IM3), and (3-hydroxy-1,2-oxazol-5-yl)methyl (P8) are the main primary intermediates, which form the main secondary species of (3,4-dihydroxy-5-methyl-4,5-dihydro-1,2-oxazol-5-yl)dioxidanyl (IM4), (3,5-dihydroxy-5-methyl-4,5-dihydro-1,2-oxazol-4-yl)dioxidanyl (IM7), and ([(3-hydroxy-1,2-oxazol-5-yl)methyl]dioxidanyl (IM11), respectively, through the reactions with O2. The main secondary species then can react with NO to form the main tertiary species, namely, (3,4-dihydroxy-5-methyl-4,5-dihydro-1,2-oxazol-5-yl)oxidanyl (P19), (3,5-dihydroxy-5-methyl-4,5-dihydro-1,2-oxazol-4-yl)oxidanyl (P21), and [(3-hydroxy-1,2-oxazol-5-yl)methyl]oxidanyl (P23), respectively, together with NO2. Besides, hymexazol could be a persistent organic pollutant in the troposphere due to its calculated half-life τ1/2 of 13.7-68.1 h, depending on the altitude.

On the Mechanism of the Inverse Vulcanization of Elemental Sulfur: Structural Characterization of Poly(sulfur-random-(1,3-diisopropenylbenzene))

Organosulfur polymers, such as those derived from elemental sulfur, are an important new class of macromolecules that have recently emerged via the inverse vulcanization process. Since the launching of this new field in 2013, the development of new monomers and organopolysulfide materials based on the inverse vulcanization process is now an active area in polymer chemistry. While numerous advances have been made over the last decade concerning this polymerization process, insights into the mechanism of inverse vulcanization and structural characterization of the high-sulfur-content copolymers that are produced remain challenging due to the increasing insolubility of the materials with a higher sulfur content. Furthermore, the high temperatures used in this process can result in side reactions and complex microstructures of the copolymer backbone, complicating detailed characterization. The most widely studied case of inverse vulcanization to date remains the reaction between S₈ and 1,3-diisopropenylbenzene (DIB) to form poly(sulfur-random-1,3-diisopropenylbenzene)(poly(S-r-DIB)). Here, to determine the correct microstructure of poly(S-r-DIB), we performed comprehensive structural characterizations of poly(S-r-DIB) using nuclear magnetic resonance spectroscopy (solid state and solution) and analysis of sulfurated DIB units using designer S-S cleavage polymer degradation approaches, along with complementary de novo synthesis of the sulfurated DIB fragments. These studies reveal that the previously proposed repeating units for poly(S-r-DIB) were incorrect and that the polymerization mechanism of this process is significantly more complex than initially proposed. Density functional theory calculations were also conducted to provide mechanistic insights into the formation of the derived nonintuitive microstructure of poly(S-r-DIB).

In Situ Tracking of Nonthermal Plasma Etching of ZIF-8 Films

Surface characterization is critical for understanding the processes used for preparing catalysts, sorbents, and membranes. Nonthermal plasma (NTP) is a process that achieves high reactivity at low temperatures and is used to tailor the surface properties of materials. In this work, we combine the capabilities of infrared reflection absorption spectroscopy (IRRAS) with NTP for the in situ interrogation of zeolitic imidazolate framework-8 (ZIF-8) thin films to probe modifications in the material induced by oxygen and nitrogen plasmas. The IRRAS measurements in oxygen plasma reveal etching of organic ligands with sequential removal of the methyl group and imidazole ring and with the formation of carbonyl moieties (C═O). In contrast, nitrogen plasma induces mild etching and grafting of nitrile groups (-C≡N). Scanning electron microscopy imaging shows that oxygen plasma, at prolonged times, significantly degrades the ZIF-8 film at the grain boundaries. Treatment of ZIF-8 membranes using mild plasma conditions yields a fivefold enhancement for H₂/N₂ and CO₂/CH₄ ideal selectivities and an eightfold enhancement for CO₂/N₂ ideal selectivity. Additionally, the new tools described here can be used for spectroscopic in situ tracking of plasma-induced chemistry on thin films in general.

Modulating the electrocatalytic activity of N-doped carbon frameworks via coupling with dual metals for Zn-air batteries

N-Doped carbon electrocatalysts are a promising alternative to precious metal catalysts to promote oxygen reduction reaction (ORR). However, it remains a challenge to design the desired active sites on carbon skeletons in a controllable manner for ORR. Herein, we developed a facile approach based on oxygen-mediated solvothermal radical reaction (OSRR) for preparation of N-doped carbon electrocatalysts with a pre-designed active site and modulated catalytic activity for ORR. In the OSRR, 2-methylimidazole reacted with Co and Mn salts to form an active site precursor (MnCo-MIm) in N-methyl-2-pyrrolidone (NMP) at room temperature. Then, the reaction temperature increased to 140 °C under an oxygen atmosphere to generate NMP radicals, followed by their polymerization with the pre-formed MnCo-MIm to produce Mn-coupled Co nanoparticle-embedded N-doped carbon framework (MnCo-NCF). The MnCo-NCF showed uniform dispersion of nitrogen atoms and Mn-doped Co nanoparticles on the carbon skeleton with micropores and mesopores. The MnCo-NCF exhibited higher electrocatalytic activity for ORR than did a Co nanoparticle only-incorporated carbon framework due to the improved charge transfer from the Mn-doped Co nanoparticles to the carbon skeleton. In addition, the Zn-air battery assembled with MnCo-NCF had superior performance and durability to the battery using commercial Pt/C. This facile approach can be extended for designing carbon electrocatalysts with desired active sites to promote specific reactions.

Oxidized Substrates of APEH as a Tool to Study the Endoprotease Activity of the Enzyme

APEH is a ubiquitous and cytosolic serine protease belonging to the prolyl oligopeptidase (POP) family, playing a critical role in the processes of degradation of proteins through both exo- and endopeptidase events. Endopeptidase activity has been associated with protein oxidation; however, the actual mechanisms have yet to be elucidated. We show that a synthetic fragment of GDF11 spanning the region 48–64 acquires sensitivity to the endopeptidase activity of APEH only when the methionines are transformed into the corresponding sulphoxide derivatives. The data suggest that the presence of sulphoxide-modified methionines is an important prerequisite for the substrates to be processed by APEH and that the residue is crucial for switching the enzyme activity from exo- to endoprotease. The cleavage occurs on residues placed on the C-terminal side of Met(O), with an efficiency depending on the methionine adjacent residues, which thereby may play a crucial role in driving and modulating APEH endoprotease activity.

Effectiveness of Epoxy Coating Modified with Yttrium Oxide Loaded with Imidazole on the Corrosion Protection of Steel

The search for highly effective corrosion protection solutions to avoid degradation of the metallic parts is enabling the development of polymeric organic coatings. Of particular relevance, polymeric nanocomposite coatings, modified with corrosion inhibitors, have been developed to provide enhanced surface protection. In this work, yttrium oxide nanoparticles loaded with corrosion inhibitor (Imidazole), used as additives in the formulation of epoxy for coated on the steel substrate. The loading of Y₂O₃ with imidazole was confirmed by field emission scanning electron microscopy (FE-SEM) and Fourier transform infrared spectroscopy (FTIR), thermogravimetric analysis (TGA) and Brunauer–Emmett–Teller analysis. UV-Vis analysis demonstrated the pH-sensitive behavior of the imidazole that helps in self-release when necessary. Electrochemical impedance spectroscopy (EIS) of the coated samples revealed that the coating modified with Y₂O₃/IMD provides better corrosion protection compared to coatings containing only Y₂O₃. XPS analysis validated the presence of an imidazole protective film on the steel substrate that enhanced the corrosion resistance of the coated samples

A systematic approach to evaluate plausible modes of actions for mouse lung tumors in mice exposed to 4-methylimidozole

The National Toxicology Program (NTP) reported that chronic dietary exposure to 4-methylimidazole (4-MeI) increased the incidence of lung adenomas/carcinomas beyond the normally high spontaneous rate in B6C3F1 mice. To examine plausible modes of action (MoAs) for mouse lung tumors (MLTs) upon exposure to high levels of 4-MeI, and their relevance in assessing human risk, a systematic approach was used to identify and evaluate mechanistic data (in vitro and in vivo) in the primary and secondary literature, along with high-throughput screening assay data. Study quality, relevance, and activity of mechanistic data identified across the evidence-base were organized according to key characteristics of carcinogens (KCCs) to identify potential key events in known or novel MLT MoAs. Integration of these evidence streams provided confirmation that 4-MeI lacks genotoxic and cytotoxic activity with some evidence to support a lack of mitogenic activity. Further evaluation of contextual and chemical-specific characteristics of 4-MeI was consequently undertaken. Due to lack of genotoxicity, along with transcriptomic and histopathological lung changes up to 28 and 90 days of exposure, the collective evidence suggests MLTs observed following exposure to high levels of 4-MeI develop at a late stage in the mouse chronic bioassay, albeit the exact MoA remains unclear.

Mechanistic insights of the degradation of an O-anisidine carcinogenic pollutant initiated by OH radical attack: theoretical investigations

O-Anisidine (O-AND) is one of the amino organic compounds that harm human health, and is considered as a carcinogenic chemical.

Atmospheric chemistry of oxazole: the mechanism and kinetic studies of the oxidation reaction initiated by OH radicals

Oxidation of oxazole by OH˙ radicals studied by DFT methods coupled with reaction kinetics calculations using TST and RRKM theories.

Ab initio kinetic mechanism of OH-initiated atmospheric oxidation of pyrrole

The comprehensive kinetic mechanism of the OH-initiated gas-phase oxidation of pyrrole is first theoretically reported in a broad range of conditions (T = 200-2000 K &P = 1-7600 Torr). On the potential energy surface constructed at the M06-2X/aug-cc-pVTZ level, the temperature- and pressure-dependent behaviors of the title reaction were characterized using the stochastic Rice-Ramsperger-Kassel-Marcus based Master Equation (RRKM-ME) rate model. The corrections of the hindered internal rotation and quantum tunneling treatments were included. The calculated results reveal the competition between the two distinct pathways: OH-addition and direct H-abstraction. The former channels are found favorable at low-temperature and high-pressure range (e.g., T < 900 K and P = 760 Torr) where non-Arrhenius and positive pressure-dependent behaviors of the rate constants are noticeably observed, while the latter predominate at temperatures higher than 900 K at atmospheric pressure and no pressure dependence on the rate constant is found. The predicted global rate constants are in excellent agreement with laboratory values; thus, the derived kinetic parameters are recommended for modeling/simulation of N-heterocycle-related applications in atmospheric and even in combustion conditions. Besides, pyrrole should not be considered as a persistent organic pollutant owing to its short atmospheric lifetime (∼1 h) towards OH radicals. The secondary mechanisms of the subsequent reactions of two OH-pyrrole adducts (namely, I1 and I2) with two abundant species, O₂/NO, which are relevant to the atmospheric degradation process, were also investigated. It is also revealed by TD-DFT calculations that two OH-pyrrole adducts (I1 &I2), nine intermediates, Ii (i = 3-11) and four products (P1, P2, P3 and P6) can undergo photodissociation under the sunlight.

On the propagation of the OH radical produced by Cu-amyloid beta peptide model complexes. Insight from molecular modelling

Oxidative stress and metal dyshomeostasis are considered as crucial factors in the pathogenesis of Alzheimer's disease (AD). Indeed, transition metal ions such as Cu(ii) can generate Reactive Oxygen Species (ROS) via O₂ Fenton-like reduction, catalyzed by Cu(ii) coordinated to the Amyloid beta (Aβ) peptide. Despite intensive effort, the mechanisms of ROS-induced molecular damage remain poorly understood. In the present paper, we investigate on the basis of molecular modelling computations the mechanism of OH radical propagation toward the Aβ peptide, starting from the end-product of OH radical generation by Cu(ii)·Aβ. We evaluate (i) the OH oxidative capacity, as well as the energetics of the possible Aβ oxidation target residues, by quantum chemistry Density Functional Theory (DFT) on coordination models of Cu(ii)/OH/Aβ and (ii) the motion of the OH˙ approaching the Aβ target residues by classical Molecular Dynamics (MD) on the full peptide Cu(ii)/OH/Aβ(1-16). The results show that the oxidative capacity of OH coordinated Cu(ii)Aβ is significantly lower than that of the free OH radical and that propagation toward Aβ Asp and His residues is favoured over Tyr residues. These results are discussed on the basis of the recent literature on in vitro Aβ metal-catalyzed oxidation and on the possible implications for the AD oxidative stress mechanism.

OH-Initiated Reactions of para-Coumaryl Alcohol Relevant to the Lignin Pyrolysis. Part III. Kinetics of H-Abstraction by H, OH, and CH3 Radicals

Lignin is the most complex component of biomass, and development of a detailed chemical kinetic model for biomass pyrolysis mainly relies on the understanding of the lignin decomposition kinetics. para-Coumaryl alcohol (p-CMA, HOPh-CH═CH-CH₂OH), the focus of our analysis, is the simplest of the lignin monomers (monolignols) containing a typical side-chain double bond and both alkyl- and phenolic-type OH-groups. In parts I and II of our work (Asatryan, R. J. Phys. Chem. A 2019, 123, 2570-2585; Hudzik, J. M. J. Phys. Chem. A 2020, current issue), we created a detailed potential energy surface (PES) and performed a kinetic analysis of chemically activated, unimolecular, and bimolecular reactions pathways for p-CMA + OH. Reaction pathways analyzed include dissociation, intramolecular abstraction, group transfer, and elimination processes. The α- and β-carbon addition reactions generate 1,3- (RA1) and 1,2-diol (RB1) adduct radicals, respectively. Well depths are approximately 29 and 41 kcal/mol below the p-CMA + OH entrance level. Kinetic analysis aides in determining the major pathways for our conventional and fractional pyrolysis experiments. The current paper focuses on the H-abstraction reactions via H, OH, and CH₃ light ("pool") radicals from p-CMA. The thermochemical properties of all stable, radical, and transition-state species were determined using the ωB97XD density functional theory (DFT) and higher-level CBS-QB3 composite methods. Barrier heights from the prereaction complexes, for OH-radical abstractions, to the transition states for the propanoid side chain are compared to the model H-abstraction reactions of allyl alcohol (AA) with OH and p-CMA with H and CH₃ radicals. The lowest-energy, most stable, p-CMA radical formed is at the C9 allylic position (p-CMA-C9j) with exothermicity of 26.63, 41.32, and 27.34 kcal/mol for H, OH, and CH₃, respectively. For OH-radical abstraction at this position, our findings are consistent with corresponding data on AA + OH at 37.44 kcal/mol and similar to that of RB1. A similar stable radical with an exothermicity of 34.95 kcal/mol occurs for the phenol hydroxyl group, generating the p-CMA-O4j radical. H-abstraction pathways are considered in relation to other major pathways previously considered for p-CMA + OH reactions including H-atom shifts, dehydration, and β-scission reactions. Derived rate coefficients for substituted phenols can be utilized in detailed kinetic models for lignin/biomass pyrolysis.

Strong proton-shared hydrogen bonding in a methyl imidazole⋯HCl complex: evidence from matrix isolation infrared spectroscopy and ab initio computations

Evidence for proton-shared hydrogen bonding is provided in a methyl imidazole⋯HCl complex using matrix isolation infrared spectroscopy and ab initio computations.

Degradation of a series of fluorinated acrylates and methacrylates initiated by OH radicals at different temperatures

Rate coefficients for the gas-phase reactions of OH radicals with a series of fluorinated acrylates and methacrylates have been measured for the first time as a function of temperature in the range 290–308 K.

Comment on “Atmospheric oxidation reactions of imidazole initiated by hydroxyl radicals: kinetics and mechanism of reactions and atmospheric implications” by Safaei et al., Phys. Chem. Chem. Phys., 2019, 21, 8445

This communication resolves the disagreement in the chemical kinetics of the imidazole + OH reaction using a more rigorous master equation/Rice–Ramsperger–Kassel–Marcus rate model on a more comprehensive potential energy surface.