scholarly journals Review of "Highly oxygenated organic molecules (HOM) formation in the isoprene oxidation by NO3 radical” by Zhao et al.

2020 ◽  
Author(s):  
Anonymous
2021 ◽  
Author(s):  
Defeng Zhao ◽  
Iida Pullinen ◽  
Hendrik Fuchs ◽  
Stephanie Schrade ◽  
Rongrong Wu ◽  
...  

<p><strong>       </strong>Highly oxygenated organic molecules (HOM) are found to play an important role in the formation and growth of secondary organic aerosol (SOA). SOA is an important type of aerosol with significant impact on air quality and climate. Compared to the oxidation of volatile organic compounds by O<sub>3</sub> and OH, HOM formation in the oxidation by NO<sub>3</sub> radical, an important oxidant at night-time and dawn, has received less attention. In this study, HOM formation in the reaction of isoprene with NO<sub>3</sub> was investigated in the SAPHIR chamber (Simulation of Atmospheric PHotochemistry In a large Reaction chamber). A large number of HOM including monomers (C<sub>5</sub>), dimers (C<sub>10</sub>), and trimers (C<sub>15</sub>), both closed-shell compounds and open-shell peroxy radicals, were detected. HOM were classified into various series according to their formula, which included monomers containing one or more N atoms, dimers containing 1-4 N atoms, and trimers containing 3-5 N atoms. Tentative formation pathways of HOM were proposed reflecting known NO<sub>3</sub> and RO<sub>2</sub> chemistry in the literature under consideration of the autoxidation via peroxy pathways and peroxy-alkoxy pathways. Further mechanistic constraints were given by the time profiles of HOM after sequential isoprene addition which enabled to differentiate first- and second-generation products. Total HOM molar yield was estimated, which suggests that HOM may contribute a significant fraction to SOA yield in the reaction of isoprene with NO<sub>3</sub>.</p>


2021 ◽  
Vol 21 (9) ◽  
pp. 7357-7372
Author(s):  
Meri Räty ◽  
Otso Peräkylä ◽  
Matthieu Riva ◽  
Lauriane Quéléver ◽  
Olga Garmash ◽  
...  

Abstract. Cyclohexene (C6H10) is commonly used as a proxy for biogenic monoterpenes, when studying their oxidation mechanisms and secondary organic aerosol (SOA) formation. The ozonolysis of cyclohexene has been shown to be effective at producing highly oxygenated organic molecules (HOMs), a group of molecules known to be important in the formation of SOA. Here, we provide an in-depth look at how the formation and fate of the broad range of observed HOMs changed with perturbations from NOx and seed particles. HOMs were produced in a chamber from cyclohexene ozonolysis and measured with a chemical ionisation mass spectrometer (CIMS) using nitrate (NO3-) as reagent ion. As high-resolution CIMS instruments provide mass spectra with numerous ion signals and a wealth of information that can be hard to manage, we employed a primarily statistical approach for the data analysis. To utilise as many individual HOM signals as possible, each compound was assigned a parameter describing the quality of the observed signal. These parameters were then used as weights or to determine the inclusion of a given signal in further analyses. Under unperturbed ozonolysis conditions, known HOM peaks were observed in the chamber, including C6H8O9 as the largest HOM signal and C12H20O9 as the largest “dimer” product. With the addition of nitric oxide (NO) into the chamber, the spectrum changed considerably, as expected. Dimer product signals decreased overall, but an increase in dimers with nitrate functionalities was seen, as a result of NO3 radical oxidation. The response of monomer signals to NO addition varied, and while nitrate-containing monomers increased, non-nitrate signals either increased or decreased, depending on the individual molecules. The addition of seed aerosol increased the condensation sink, which markedly decreased the signals of all low-volatility compounds. Larger molecules were seen to have a higher affinity for condensation, but a more detailed analysis showed that the uptake was controlled mainly by the number of oxygen atoms in each molecule. Nitrates required higher mass and higher oxygen content to condense at similar rates as the non-nitrate HOMs. We also tested two existing elemental-composition-based parameterisations for their ability to reproduce the condensation observed in our cyclohexene system. Both predicted higher volatilities than observed, most likely due to the number of oxygen atoms enhancing the product uptake more than the models would suggest.


Author(s):  
Defeng Zhao ◽  
Iida Pullinen ◽  
Hendrik Fuchs ◽  
Stephanie Schrade ◽  
Rongrong Wu ◽  
...  

2020 ◽  
Author(s):  
Meri Räty ◽  
Otso Peräkylä ◽  
Matthieu Riva ◽  
Lauriane Quéléver ◽  
Olga Garmash ◽  
...  

Abstract. Cyclohexene (C6H10) is commonly used as a proxy for biogenic monoterpenes, when studying their oxidation mechanisms and secondary organic aerosol (SOA) formation. The ozonolysis of cyclohexene has been shown to be effective at producing highly oxygenated organic molecules (HOM), a group of molecules known to be important in the formation of SOA. Here, we provide an in depth look at how, on a molecular level, the HOM formation and fate changed with perturbations from NOx and seed particles. HOM were produced in a chamber from cyclohexene ozonolysis, and measured with a chemical ionisation mass spectrometer (CIMS) using nitrate (NO3−) as reagent ion. As high-resolution CIMS instruments provide mass spectra with numerous ion signals and a wealth of information that can be hard to manage, we employed a primarily statistical approach for the data analysis. To utilise as many individual HOM signals as possible, each compound was assigned a parameter describing the quality of the observed signal. These parameters were then used as weights or to determine the inclusion of a given signal in further analyses. Under unperturbed ozonolysis conditions, known HOM peaks were observed in the chamber, including C6H8O9 as the largest HOM signal, and C12H20O9 as the largest dimer product. With the addition of nitric oxide (NO) into the chamber, the spectrum changed considerably, as expected. Dimer product signals decreased overall, but an increase in dimers with nitrate functionalities was seen, as a result of NO3 radical oxidation. The response of monomer signals to NO addition varied, and while nitrate-containing monomers increased, non-nitrate signals either increased or decreased, depending on the individual molecules. The addition of seed aerosol increased the condensation sink, which markedly decreased the signals of all low-volatility compounds. Larger molecules were seen to have a higher affinity for condensation, but a more detailed analysis showed that the uptake was controlled mainly by the number of oxygen atoms in each molecule. All non-nitrate compounds with at least 7 oxygen atoms were observed to condense onto the seed aerosol at close to equal rates. Nitrates required higher mass and higher oxygen content to condense at similar rates as the non-nitrate HOM. A comparison to experiments with alpha-pinene reported earlier, showed quite a similar relationship between elemental composition and volatility, although products from alpha-pinene ozonolysis appeared to require slightly higher oxygen numbers for the same decrease in volatility. In addition, two models developed for predicting volatilities of volatile organic compound (VOC) oxidation products were tested on the ozonolysis products of cyclohexene.


2018 ◽  
Vol 11 (8) ◽  
pp. 4763-4773 ◽  
Author(s):  
Anne-Kathrin Bernhammer ◽  
Lukas Fischer ◽  
Bernhard Mentler ◽  
Martin Heinritzi ◽  
Mario Simon ◽  
...  

Abstract. During nucleation studies from pure isoprene oxidation in the CLOUD chamber at the European Organization for Nuclear Research (CERN) we observed unexpected ion signals at m∕z = 137.133 (C10H17+) and m∕z = 81.070 (C6H9+) with the recently developed proton-transfer-reaction time-of-flight (PTR3-TOF) mass spectrometer instrument. The mass-to-charge ratios of these ion signals typically correspond to protonated monoterpenes and their main fragment. We identified two origins of these signals: first secondary association reactions of protonated isoprene with isoprene within the PTR3-TOF reaction chamber and secondly [4+2] cycloaddition (Diels–Alder) of isoprene inside the gas bottle which presumably forms the favored monoterpenes limonene and sylvestrene, as known from literature. Under our PTR3-TOF conditions used in 2016 an amount (relative to isoprene) of 2 % is formed within the PTR3-TOF reaction chamber and 1 % is already present in the gas bottle. The presence of unwanted cycloaddition products in the CLOUD chamber impacts the nucleation studies by creating ozonolysis products as the corresponding monoterpenes and is responsible for the majority of the observed highly oxygenated organic molecules (HOMs), which in turn leads to a significant overestimation of both the nucleation rate and the growth rate. In order to study new particle formation (NPF) from pure isoprene oxidation under relevant atmospheric conditions, it is important to improve and assure the quality and purity of the precursor isoprene. This was successfully achieved by cryogenically trapping lower-volatility compounds such as monoterpenes before isoprene was introduced into the CLOUD chamber.


2018 ◽  
Author(s):  
Anne-Kathrin Bernhammer ◽  
Lukas Fischer ◽  
Bernhard Mentler ◽  
Martin Heinritzi ◽  
Mario Simon ◽  
...  

Abstract. During nucleation studies from pure isoprene oxidation in the CLOUD chamber at CERN we observed unexpected ion signals at m/z = 137.133 (C10H17+) and m/z = 81.070 (C6H9+) with the recently developed proton transfer reaction time-of-flight mass spectrometer (PTR3‑TOF) instrument. The mass-to-charge ratios of these ion signals typically correspond to protonated monoterpenes and their main fragment. We identified two origins of these signals: First secondary association reactions of protonated isoprene with isoprene within the PTR3 reaction chamber and secondly [4+2] cycloaddition (Diels-Alder) of isoprene inside the gas bottle which presumably forms the favoured monoterpenes limonene and sylvestrene, as known from literature. Under our PTR3 conditions used in 2016 an amount (relative to isoprene) of 2 % is formed within the PTR3 reaction chamber and 1 % is already present in the gas bottle. The presence of unwanted cycloaddition products in the CLOUD chamber impacts the nucleation studies by creating ozonolysis products as corresponding monoterpenes, and is responsible for the majority of the observed highly oxygenated organic molecules (HOMs). In order to study NPF from pure isoprene oxidation under atmospheric relevant conditions, it is important to improve and assure the quality and purity of the precursor isoprene. This was successfully achieved by cryogenically trapping lower volatility compounds such as monoterpenes before isoprene was introduced into the CLOUD chamber.


Author(s):  
W. W. Barker ◽  
W. E. Rigsby ◽  
V. J. Hurst ◽  
W. J. Humphreys

Experimental clay mineral-organic molecule complexes long have been known and some of them have been extensively studied by X-ray diffraction methods. The organic molecules are adsorbed onto the surfaces of the clay minerals, or intercalated between the silicate layers. Natural organo-clays also are widely recognized but generally have not been well characterized. Widely used techniques for clay mineral identification involve treatment of the sample with H2 O2 or other oxidant to destroy any associated organics. This generally simplifies and intensifies the XRD pattern of the clay residue, but helps little with the characterization of the original organoclay. Adequate techniques for the direct observation of synthetic and naturally occurring organoclays are yet to be developed.


Author(s):  
Douglas L. Dorset

The quantitative use of electron diffraction intensity data for the determination of crystal structures represents the pioneering achievement in the electron crystallography of organic molecules, an effort largely begun by B. K. Vainshtein and his co-workers. However, despite numerous representative structure analyses yielding results consistent with X-ray determination, this entire effort was viewed with considerable mistrust by many crystallographers. This was no doubt due to the rather high crystallographic R-factors reported for some structures and, more importantly, the failure to convince many skeptics that the measured intensity data were adequate for ab initio structure determinations.We have recently demonstrated the utility of these data sets for structure analyses by direct phase determination based on the probabilistic estimate of three- and four-phase structure invariant sums. Examples include the structure of diketopiperazine using Vainshtein's 3D data, a similar 3D analysis of the room temperature structure of thiourea, and a zonal determination of the urea structure, the latter also based on data collected by the Moscow group.


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