Ion-molecule Reactions Research Articles

Ion-molecule reactions in CO2 clusters induced by low-energy electron attachment

Abstract Dissociative electron attachment (DEA) process in molecular clusters is inherently complex, and elucidating the underlying mechanisms presents significant challenges. This study builds upon our previous research by investigating DEA in the larger and more numerous CO2 clusters, and extending the electron attachment energy to 15 eV. This enhanced approach allows for the detection of anionic species such as O 2 − and (CO2)nO 2 − . We recorded the production efficiency curves and kinetic energy distributions of the fragment anions, revealing that the O 2 − anions can be formed via the DEA process of CO2 monomers, consistent with previously reported observations. Additionally, O 2 − may also be produced through a cascade reaction process involving ion-molecule/atom interactions within the clusters, even when the attachment energy exceeds the DEA threshold of O 2 − production from CO2 monomers. Furthermore, the stabilization of these detected anions (CO2)nO 2 − is attributed to energy dissipation via molecular evaporative cooling, as previously proposed. This study offers new insights into the underlying mechanisms of DEA in molecular clusters, thereby enhancing our understanding of electron-induced reactions in atmospheric and astrochemical contexts.

Dynamical study of the reaction of N+ ions with O2 neutrals

Abstract The ion-molecule reaction N+ + O2 has been investigated experimentally using crossed beam velocity map imaging in the collision energy range from 0.15 eV to 3.0 eV. From the differential scattering cross sections, information on the branching ratios, the electronic states and vibrational levels populated in the two product channels, O2+ + N and NO+ + O, have been obtained. These data are compared with previous results obtained using a rotatable ion source setup developed many years ago at the University of Freiburg, Germany. Furthermore, a small fraction of NO+ products populate excited electronic states as observed in chemiluminescence measurements.

Atomistic dynamics of elimination and substitution driven by entrance channel.

E2 elimination and SN2 substitution reactions are of central importance in preparative organic synthesis due to their stereospecificity. Herein, atomistic dynamics of a prototype reaction of ethyl chloride with hydroxide ion are uncovered that show strikingly distinct features from the case with fluoride anion. Chemical dynamics simulations reproduce the experimental reaction rate and reveal that the E2 proceeding through a direct elimination mechanism dominates over SN2 for the hydroxide ion reaction. This unexpected finding of a pronounced contribution of direct reaction dynamics, even at a near-thermal energy, is in strong contrast to the complex-mediated indirect mechanism for the fluoride case that characterizes the low-energy ion-molecule reactions. The entrance channel structures are found to be crucial and the differences are attributed to subtle changes in the hydrogen-bonding interaction of the approaching reactants. This effect presents in E2/SN2 reactions of different bases and alkyl halides and might play a role in complex chemical networks and environments.

Creation of Gas-Phase Organo-Uranium Species by Removal of "yl" Oxo Ligands From UO2 2+ Carboxylate Precursor Ions.

These experiments were conducted to measure the diversity of organo-U (IV) and U (III) ions created using multiple-stage tandem MS and collision-induced dissociation of halogen-substituted UVIO2-phenide complexes [UO2(C6H3FX)]+, X = Cl, Br, or I. Samples of UO2(O2C-C6H3FX)2 were prepared by digesting UO3 with appropriate halogen-substituted carboxylic acids in deionized water. Solutions for ESI were created by diluting the digested sample in 50:50 H2O/CH3OH. Precursor ions for multiple-stage tandem MS were generated by electrospray ionization (ESI). Multiple-stage collision-induced dissociation (He collision gas) in a linear quadrupole ion trap mass spectrometer was used to prepare species such as [UIVFX(C≡CH)]+ and UIIIF(C≡CH)]+ for subsequent study of ion-molecule reactions with adventitious neutrals in the ion trap. Multiple-stage CID of the [UO2(C6H3FX)]+, X = Cl, Br, or I, complexes caused removal of both "yl" oxo ligands from of the UO2 2+ moiety to create ions such as [UIVFX(C≡CH)]+ and [UIIIFX]+. For [UIVFXC≡CH]+ and [UIIIFC≡CH]+ products, hydrolysis to generate [UIVFX (OH)]+ and [UIIIF (OH)]+, with concomitant loss of HC≡CH, was observed. CID of [UO2(C6H3FBr)]+ and [UO2(C6H3FI)]+ caused reductive elimination of the respective halogen radicals to generate interesting organo-U (III) species such as [UIIIF(C≡CH)]+ and [UIIIC2]+. The use of "preparative" tandem mass spectrometry and a suite of halogen substituted benzoic acid ligands can be used to remove both oxo ligands of UO2 2+ and generate a group of homologous organo-U (IV) and organo-U (III) ions for studies of intrinsic reactivity.

Exploring the Role of Ion–Molecule Reactions on Interstellar Icy Grain Surfaces

Exploring the Role of Ion–Molecule Reactions on Interstellar Icy Grain Surfaces

Empirical Approach to Quantifying Sensitivity in Different Chemical Ionization Techniques for Organonitrates and Nitroaromatics Constrained by Ion-Molecule Reaction and Transmission Efficiency.

Accurate identification and quantification of nitro-containing species are of great significance to understanding their chemical behaviors in the atmosphere. By optimizing the operational conditions of the H3O+ and NO+ ionization modes in a proton-transfer-reaction time-of-flight mass spectrometer (PTR-TOF-MS) and evaluating the performance of an iodide chemical ionization mass spectrometer (I- CIMS), this study leveraged the individual advantages of each ionization mode to effectively detect a diverse array of nitroaromatics and organonitrates (ONs). The H3O+ ionization mode largely fulfilled the criteria for real-time monitoring of gas-phase alkyl-, aryl-, and hydroxy-nitrates, and nitrophenols, albeit its reduced sensitivity toward ONs due to extensive fragmentation. In contrast, the NO+ mode demonstrated enhanced sensitivity for ONs with less fragmentation than the H3O+ mode. The I- CIMS featured distinguished sensitivity toward oxidized compounds containing polar functional groups, particularly increasing with the incorporation of hydroxyl, carboxyl, or nitrate groups. Further, we developed a calibration-based semiquantitative framework to enhance the accuracy of sensitivity estimation, constrained by ion-molecule reaction, transmission efficiency, along with possible decomposition of ion-clusters, with uncertainties ranging from 21% to 41% for H3O+ and 21-43% for NO+. Given considerable discrepancies (up to 1 order of magnitude) between measured and predicted sensitivity in I- CIMS using previously reported log-linear fitting, a declustering voltage (dV50)-based categorization approach was introduced, leading to a 5-fold improvement in measurement accuracy and an overall uncertainty of I- CIMS in quantifying nitro-containing species varying from 27% to 60%.

Evaluation of a reduced-pressure chemical ion reactor utilizing adduct ionization for the detection of gaseous organic and inorganic species

Abstract. Volatile organic compounds (VOCs) and volatile inorganic compounds (VICs) provide critical information across many scientific fields including atmospheric chemistry and soil and biological processes. Chemical ionization (CI) mass spectrometry has become a powerful tool for tracking these chemically complex and temporally variable compounds in a variety of laboratory and field environments. It is particularly powerful with time-of-flight mass spectrometers, which can measure hundreds of compounds in a fraction of a second and have enabled entirely new branches of VOC and/or VIC research in atmospheric and biological chemistry. To accurately describe each step of these chemical, physical, and biological processes, measurements across the entire range of gaseous products is crucial. Recently, chemically comprehensive gas-phase measurements have been performed using many CI mass spectrometers deployed in parallel, each utilizing a different ionization method to cover a broad range of compounds. Here we introduce the recently developed Vocus AIM (adduct ionization mechanism) ion–molecule reactor (IMR), which samples trace vapors in air and ionizes them via chemical ionization at medium pressures. The Vocus AIM supports the use of many different reagent ions of positive and negative polarity and is largely independent of changes in the sample humidity. Within the present study, we present the performance and explore the capabilities of the Vocus AIM using various chemical ionization schemes, including chloride (Cl−), bromide (Br−), iodide (I−), nitrate (NO3-), benzene cations (C6H6+), acetone dimers ((C3H6O)2H+), and ammonium (NH4+) reagent ions, primarily in laboratory and flow tube experiments. We report the technical characteristics and operational principles, and compare its performance in terms of time response, humidity dependence, and sensitivity to that of previous chemical ionization approaches. This work demonstrates the benefits of the Vocus AIM reactor, which provides a versatile platform to characterize VOCs and VICs in real time at trace concentrations.

B-166 Differentiation of Aziridine Functionality from Related Functional Groups in Protonated Analytes by Using Selective Ion-Molecule Reactions

Abstract Background The development of better methods for the rapid and reliable identification of unknown compounds in mixtures is urgently needed in drug development. Aziridines, in particular, are used for drug synthesis but are potentially mutagenic and carcinogenic compounds. However, the detection and identification of these compounds pose challenges for many analytical methods, such as Nuclear Magnetic Resonance (NMR) spectroscopy, Fourier-transform infrared spectroscopy (FT-IR), and X-ray crystallography. These techniques are time-consuming and often require large quantities of highly pure compounds. Methods Therefore, this study demonstrates that selective gas-phase ion-molecule reactions of protonated analytes with neutral tris(dimethylamino)borane (TDMAB), followed by diagnostic collision-activated dissociation (CAD), can be used to differentiate aziridines from structurally related compounds in a modified linear quadrupole ion trap (LQIT) mass spectrometer. The experiments were performed using an atmospheric pressure chemical ionization (APCI) source in positive ion detection mode. TDMAB was purchased from Sigma-Aldrich and used without purification. It was introduced into the ion trap (2 mtorr of helium buffer gas) via an external reagent mixing manifold through a syringe pump at a flow rate of 10 μL h-1 and diluted with helium before entering the ion trap through a variable leak valve. All analytes were prepared at a concentration of 1 mM in methanol. The protonated analytes were transferred into the ion trap, isolated, and allowed to react with TDMAB (MS2 experiments). Results Product ions formed upon reactions of the analyte ions with TDMAB were subjected to a collision-activated dissociation (CAD) experiment (MS3 experiments). CAD on product ions produced diagnostic fragment ions with 25- and 43 m/z-units lower m/z values than the adduct - DMA product ions. Quantum chemical calculations were employed using the Gaussian 16 program calculated at the M06-2X/6-311++G(d,p) level of theory to provide theoretical foundation and to explore the underlying mechanisms of the observed gas-phase reactions. None of the tested structurally related analytes produced a similar fragmentation pattern Conclusions The innovative approach presented in this study offers a promising avenue for enhancing efficiency and accuracy in drug development. The successful differentiation of aziridine is an alternative method in overcoming the limitation of traditional techniques. The findings from the research contributes to the advancement of analytical techniques, addressing critical issues in identifying impurities in drug products. The versatility of the methods extends beyond drug developments, making it applicable in various other fields such as in molecular diagnostics, metabolism and laboratory medicines.

Roundabout Mechanism of Ion-Molecule Nucleophilic Substitution Reactions.

Roundabout (RA) is an important indirect mechanism for gas-phase X- + CH3Y → XCH3 + Y- SN2 reactions at a high collision energy. It refers to the rotation of the CH3-group by half or multiple circles upon the collision of incoming nucleophiles before substitution takes place. The RA mechanism was first discovered in the Cl- + CH3I SN2 reaction to explain the energy transfer observed in crossed molecular beam imaging experiments in 2008. Since then, the RA mechanism and its variants have been observed not only in multiple C-centered SN2 reactions, but also in N-centered SN2 reactions, proton transfer reactions, and elimination reactions. This work reviewed recent studies on the RA mechanism and summarized the characteristics of RA mechanisms in terms of variant types, product energy partitioning, and product velocity scattering angle distribution. RA mechanisms usually happen at small impact parameters and tend to couple with other mechanisms at relatively low collision energy, and the available energy of roundabout trajectories is primarily partitioned to internal energy. Factors that affect the importance of the RA mechanism were analyzed, including the type of leaving group and nucleophile, collision energy, and microsolvation. A massive leaving group and relatively high collision energy are prerequisite for the occurrence of the roundabout mechanism. Interestingly, when reacting with CH3I, the importance of RA mechanisms follows an order of Cl- > HO- > F-, and such a nucleophile dependence was attributed to the difference in proton affinity and size of the nucleophile.

Making OzID go FFASTer: Combining stable-isotope tagging with ozone-induced dissociation to uncover changes in fatty acid unsaturation within neurosecretory cells

Despite lipids providing a major contribution to the mass of the brain, at the molecular level, the brain lipidome remains incompletely described and the functions of many of the species identified to date are unknown. Recently, unusual unsaturated fatty acids –with carbon-carbon double bonds in positions not predicted by canonical lipid metabolism– were identified in the mouse brain. The extent to which these unusual lipids contribute to neurochemical processes presents a significant gap in knowledge that is challenging to close due to technological impediments to the detection and tracing of such novel fatty acids. Here we deploy state-of-the-art mass spectrometric methods coupled with diagnostic ion-molecule reactions in the form of ozone-induced dissociation to enable detection and relative quantification of unsaturated fatty acids in an in vitro brain model based on the PC12 cell line. This approach revealed the presence of abundant populations of non-canonical fatty acids, including FA 16:1n-10,cis (sapienic acid) and FA 18:1n-10,cis (dihomosapienic acid), in extracts from PC-12 cell lines. Neither of these fatty acids have previously been reported in neurons or neurosecretory-like cells, with both demonstrated to increase between 2 and 4-fold in relative abundance upon active stimulation.

Inverse Isotope Kinetic Effect of the Charge Transfer Reactions of Ar+ with H2O and D2O.

Hydrogen isotopic effect, as the key to revealing the origin of Earth's water, arises from the H/D mass difference and quantum dynamics at the transition state of reaction. The ion-molecule charge-exchange reaction between water (H2O/D2O) and argon ion (Ar+) proceeds spontaneously and promptly, where there is no transition-state or intermediate complex. In this energetically resonant process, we find an inverse kinetic isotope effect (KIE) leading to the higher charge transfer rate for D2O, by the velocity map imaging measurements of H2O+/D2O+ products. Using the average dipole orientation capture model, we estimate the orientation angles of C2v axis of H2O/D2O relative to the Ar+ approaching direction and attribute to the difference of stereodynamics. According to the long-distance Landau-Zener charge transfer model, this inverse KIE could be also attributed to the density-of-state difference of molecular bending motion between H2O+ and D2O+ around the resonant charge transfer.

David Smith. 26 November 1935—15 February 2023

David Smith was an exceptional chemical physicist who greatly contributed to the field of molecular science by inventing novel techniques and instruments to study gas-phase reactions of electrons and ions. These reactions are important for understanding the atmospheres and interstellar media. One of his inventions was the flowing afterglow Langmuir probe apparatus, which was used to collect data on electron attachment and electron–ion recombination. Another technique he developed was the selected ion flow tube (SIFT), which helped to understand thousands of ion–molecule reactions. This innovative technique has become the foundation of a new analytical method called SIFT-MS, which is currently used in various industries such as semiconductors and pharmaceuticals, as well as in biological and medical research.

Pursuing drug laboratories: Analysis of drug precursors with High Kinetic Energy Ion Mobility Spectrometry

High Kinetic Energy Ion Mobility Spectrometry (HiKE-IMS) is a technique for rapid and reliable detection of trace compounds down to ppbV-levels within one second. Compared to classical IMS operating at ambient pressure and providing the ion mobility at low electric fields, HiKE-IMS can also provide the analyte-specific field dependence of the ion mobility and a fragmentation pattern at high reduced electric field strengths. The additional information about the analyte obtained by varying the reduced electric field strength can contribute to reliable detection. Furthermore, the reduced number of ion-molecule reactions at the low operating pressure of 10 – 40 mbar and the shorter reaction times reduce the impact of competing ion-molecule reactions that can cause false negatives. In this work, we employ HiKE-IMS for the analysis of phenyl-2-propanone (P2P) and other precursor chemicals used for synthesis of methamphetamine and amphetamine. The results show that the precursor chemicals exhibit different behavior in HiKE-IMS. Some precursors form a single significant ion species, while others readily form a fragmentation pattern. Nevertheless, all drug precursors can be distinguished from each other, from the reactant ions and from interfering compounds. In particular, the field-dependent ion mobility as an additional separation dimension aids identification, potentially reducing the number of false positive alarms in field applications. Furthermore, the analysis of a seized illicit P2P sample shows that even low levels of P2P can be detected despite the complex background present in the headspace of real samples.

Laser Printer Printed Ion Sources for Ambient Ionization Mass Spectrometric Analysis of Volatiles and Semivolatiles.

In this study, we demonstrated a facile method to fabricate ion sources using a laser printer for ambient ionization mass spectrometry (MS). Toner spots printed by a printer can readily facilitate ionizing volatile and semivolatile compounds derived from solid or liquid samples for MS analysis. The experimental arrangement involved positioning the toner-printed paper near the inlet of a mass spectrometer, which was subjected to a high electric potential (e.g., -6 kV). Volatile or semivolatile compounds deriving from the sample positioned below the metal inlet of the mass spectrometer were promptly ionized upon activating the mass spectrometer. No direct electrical connection or voltage application was required on the paper substrate. An electric field was established between the toner spot on the paper and the inlet applied with a high voltage to induce the dielectric breakdown of the surrounding air and water molecules. Consequently, ionic species, including electrons and cationic radicals, were generated. Subsequent ion-molecule reactions facilitated the production of protons for ionizing analytes present in the gas phase proximal to the inlet of the mass spectrometer. Deprotonated analytes were detected in the resultant mass spectra when employing the method in negative ion mode. This methodology presents a straightforward approach for analyzing analytes in the gas phase under ambient conditions utilizing an exceptionally uncomplicated experimental setup. In addition, the developed method can be used to detect trace 2,4-dinitrophenol, an explosive, with a limit of detection as low as ∼30 pg.

Noncovalent Interactions Steer the Formation of Polycyclic Aromatic Hydrocarbons.

Aromatic molecules play an important role in the chemistry of astronomical environments such as the cold interstellar medium (ISM) and (exo)planetary atmospheres. The observed abundances of (polycyclic) aromatic hydrocarbons such as benzonitrile and cyanonaphthalenes are, however, highly underestimated by astrochemical models. This demonstrates the need for more experimentally verified reaction pathways. The low-temperature ion-molecule reaction of benzonitrile•+ with acetylene is studied here using a multifaceted approach involving kinetics and spectroscopic probing of the reaction products. A fast radiative association reaction via an in situ experimentally observed prereactive complex shows the importance of noncovalent interactions in steering the pathway during cold ion-molecule reactions. Product structures of subsequent reactions are unambiguously identified using infrared action spectroscopy and reveal the formation of nitrogen-containing, linked bicyclic structures such as phenylpyridine•+ and benzo-N-pentalene+ structures. The results, contradicting earlier assumptions on the product structure, demonstrate the importance of spectroscopic probing of reaction products and emphasize the possible formation of linked bicyclic molecules and benzo-N-pentalene+ structures in astronomical environments.

Experimental Reactivity of (MoO3)NO- (N = 1-21) Cluster Anions with C1-C4 Alkanes: A Simple Model to Predict the Reactivity with Methane.

Metal oxide clusters with atomic oxygen radical anions are important model systems to study the mechanisms of activating and transforming very stable alkane molecules under ambient conditions. It is extremely challenging to characterize the activation and conversion of methane, the most stable alkane molecule, by metal oxide cluster anions due to the low reactivity of the anionic species. In this study, using a ship-lock type reactor that could be run at relatively high pressure conditions to provide a high number of collisions in ion-molecule reactions, the rate constants of the reactions between (MoO3)NO- (N = 1-21) cluster anions and the light alkanes (C1-C4) were measured under thermal collision conditions. The relationships among the reaction rates of different alkanes were obtained to establish a model to predict the low rate constants with methane from the high rate constants with C2-C4 alkanes. The model was tested by using available experimental results in literature. This study provides a new method to estimate the relatively low reactivity of atomic oxygen radical anions with methane on metal oxide clusters.

A new photoionization-induced substitution reaction chemical ionization time-of-flight mass spectrometry for highly sensitive detection of trace exhaled ethylene

Highly sensitive and rapid detection of ethylene, the smallest alkene of great significance in human physiological metabolism remains a great challenge. In this study, we developed a new photoionization-induced substitution reaction chemical ionization time-of-flight mass spectrometry (PSCI-TOFMS) for trace exhaled ethylene detection. An intriguing ionization phenomenon involving a substitution reaction between the CH2Br2+ reactant ion and ethylene molecule was discovered and studied for the first time. The formation of readily identifiable [CH2Br·C2H4]+ product ion greatly enhanced the ionization efficiency of ethylene, which led to approximately 800-fold improvement of signal intensity over that in single photon ionization mode. The CH2Br2+ reactant ion intensity and ion-molecule reaction time were optimized, and a Nafion tube was employed to eliminate the influence of humidity on the ionization of ethylene. Consequently, a limit of detection (LOD) as low as 0.1 ppbv for ethylene was attained within 30 s at 100 % relative humidity. The application of PSCI-TOFMS on the rapid detection of trace amounts of exhaled ethylene from healthy smoker and non-smoker volunteers demonstrated the satisfactory performance and potential of this system for trace ethylene measurement in clinical diagnosis, atmospheric measurement, and process monitoring.

Low-Cost Alternative for Online Analysis of Volatile Organic Compounds.

The use of online mass spectrometry for detecting volatile organic compounds (VOCs) has proven to be a powerful technique, allowing for real-time analysis of many chemical and biochemical processes. Unfortunately, online mass spectrometry has had limited application due to high instrument costs and limited availability. Here, we detail the design, construction, and performance characteristics of a custom ion-molecule reactor retrofitted to a commonly used single quadrupole mass spectrometer to operate as an online chemical ionization mass spectrometer (CIMS). This low-cost modified CIMS is capable of limits of detection below 10 parts per trillion for select VOCs including dimethyl sulfide, dimethylamine, and trimethylamine.

Proton Transfer Processes in 2-Butenenitrile Dimer Cation Studied by Mass-Selective Infrared Spectroscopy.

2-Butenenitrile (2-Bu) is a recently discovered crucial interstellar molecule. Herein, an abnormal NH band was observed in the infrared spectrum of the 2-Bu dimer cation, suggestive of a proton transfer reaction within the cluster. Through a comprehensive theoretical analysis of the IR spectrum of (2-Bu)2+, we discovered not only the formation of a new C-N bond through the attachment of one 2-Bu to another but also the occurrence of a proton transfer reaction in the cluster. This proton was identified as originating from the methyl group of the attaching 2-Bu in the cluster based on the analysis of IR spectra of (2-Bu)+ and [2-Bu-acrylonitrile (AN)]+. Furthermore, the detailed reaction process of this ion-molecule reaction is examined with theoretical calculation. This finding contributes significantly to our deeper understanding of ion-molecule reactions in the gas phase and the formation of nitrogen-containing prebiotic molecules in the interstellar medium.

Gas-phase ion mobility of protonated aldehydes in helium measured using a selected ion flow-drift tube.

In soft chemical ionization mass spectrometry, analyte ions are produced via ion-molecule reactions in the reactor. When an electric field E is imposed, the ion drift velocity vd determines the reaction time and the effective ion temperature. Agreement between experimental ion mobilities and theoretical predictions confirms the accuracy of the ion residence time measurement procedure. A selected ion flow-drift tube (SIFDT), an instrument with a chemical ionization source, was used to produce protonated aldehydes and selectively inject them into the resistive glass drift tube filled with He. Arrival-time distributions of ions were obtained using the Hadamard modulation. Reduced ion mobilities were then obtained at a pressure of 2hPa in the E/N range of 5-15 Td. Theoretical ion mobility values were calculated using two methods: hard-sphere approximation and trajectory modelling. The measured mobilities of three saturated and three unsaturated protonated aldehydes do not show substantial variation across the studied E/N range. Effective temperatures calculated using the Wannier formula from measured gas temperatures ranged from 300 to 315 K. Experimentally obtained values of the near-zero- E/N-reduced ion mobilities agree with both methods of calculations typically within ±3% standard deviation (maximum ±5%). The experimental SIFDT values of reduced mobilities in He of protonated aldehyde molecules generated from a chemical ionization source are in close agreement with two different theoretical methods based on the density functional theory calculations of ion geometries and partial atomic charges. Besides its fundamental importance, the ion mobility results validate the correct operation of the drift tube reactor and the ion residence time measurement procedure. Diffusion losses can also be determined from these results.