An innovative method to identify structural change through ion-molecule collision, making use of Time-Of-Flight measurements and SIMION simulations.

Structural change of ions induced by collision with a neutral has been studied in a guided ion beam tandem mass spectrometer, using Time-Of-Flight measurements and SIMION simulation. The exothermic catalytic isomerization of HOC+ to HCO+ is used to explore the new methodology. Isomerization is catalyzed via a proton transport mechanism through the interplay of a neutral molecule, the catalyst. Four different potential catalysts, Ne, D2, CH4, and C18O, were studied at different collision energies. SIMION simulation of the ion path and collision in the instrument leads to the highlight of a specific signature related to the catalytic isomerization in the time-of-flight spectra. This signature is used to identify the experimental conditions where isomerization takes place. Only C18O, at low collision energies, gives a clear signature of catalytic isomerization, and a quantitative estimate of the catalyzed isomerization cross-section and rate constant is derived. This new methodology is sensitive to clear presence of catalyzed isomerization and can be used in instruments designed for cross-section measurements, provided low collision energy is used and ion bunching is available.

Reactivity of the Ethenium Cation (C2H5+) with Ethyne (C2H2): A Combined Experimental and Theoretical Study.

The gas-phase reaction between the ethyl cation (C2H5+) and ethyne (C2H2) is re-investigated by measuring absolute reactive cross sections (CSs) and branching ratios (BRs) as a function of collision energy, in the thermal and hyperthermal energy range, via tandem-guided ion beam mass spectrometry under single collision conditions. Dissociative photoionization of C2H5Br using tuneable VUV radiation in the range 10.5-14.0 eV is employed to generate C2H5+, which has also allowed us to explore the impact of increasing (vibrational) excitation on the reactivity. Reactivity experiments are complemented by theoretical calculations, at the G4 level of theory, of the relative energies and structures of the most relevant stationary points on the reactive potential energy hypersurface (PES) and by mass-analyzed ion kinetic energy (MIKE) spectrometry experiments to probe the metastable decomposition from the [C4H7]+ PES and elucidate the underlying reaction mechanisms. Two main product channels have been identified at a centre-of-mass collision energy of ∼0.1 eV: (a) C3H3++CH4, with BR = 0.76±0.05 and (b) C4H5++H2, with BR = 0.22±0.02. A third channel giving C2H3+ in association with C2H4 is shown to emerge at both high internal excitation of C2H5+ and high collision energies. From CS measurements, energy-dependent total rate constants in the range 4.3×10-11-5.2×10-10 cm3·molecule-1·s-1 have been obtained. Theoretical calculations indicate that both channels stem from a common covalently bound intermediate, CH3CH2CHCH+, from which barrierless and exothermic pathways exist for the production of both cyclic c-C3H3+ and linear H2CCCH+ isomers of the main product channel. For the minor C4H5+ product, two isomers are energetically accessible: the three-member cyclic isomer c-C3H2(CH3)+ and the higher energy linear structure CH2CHCCH2+, but their formation requires multiple isomerization steps and passages via transition states lying only 0.11 eV below the reagents' energy, thus explaining the smaller BR. Results have implications for the modeling of hydrocarbon chemistry in the interstellar medium and the atmospheres of planets and satellites as well as in laboratory plasmas (e.g., plasma-enhanced chemical vapor deposition of carbon nanotubes and diamond-like carbon films).

New light on the imbroglio surrounding the C8H+6 isomers formed from ionized azulene and naphthalene using ion-molecule reactions.

Most polycyclic aromatic hydrocarbons (PAHs) can isomerize with internal energies near to or below the dissociation threshold. The C10H+8 group of ions, made up of the naphthalene (Naph+) and the azulene (Azu+) radical cations, is a prototypical example. C8H+6 isomers are important species in the growth kinetics and formation of complex organic molecules, and more generally fragments from larger PAHs, yet information about C8H+6 structures is scarce and contradictory. Here, ion-molecule reactions were carried out and the tunable photoionization chemical monitoring technique was used to probe the C8H+6 isomers formed upon C2H2-loss from Naph+ and Azu+. The experimental findings were interpreted with the support of ab initio and kinetics calculations. To facilitate the interpretation of these data, chemical reactivity starting from phenylacetylene (PA) was studied. It was found that most of the C8H+6 ions formed from C10H8, in a timescale of 40 µs, are PA+ in the vicinity of the dissociation threshold. No evidence of the pentalene radical cation (PE+) was observed and explanations to reconcile previous results are presented.

H2O˙+ and OH+ reactivity versus furan: experimental low energy absolute cross sections for modeling radiation damage.

Radiotherapy is one of the most widespread and efficient strategies to fight malignant tumors. Despite its broad application, the mechanisms of radiation-DNA interaction are still under investigation. Theoretical models to predict the effects of a particular delivered dose are still in their infancy due to the difficulty of simulating a real cell environment, as well as the inclusion of a large variety of secondary processes. This work reports the first experimental study of the ion-molecule reactions of the H2O˙+ and OH+ ions, produced by photoionization with synchrotron radiation, with a furan (c-C4H4O) molecule, a template for deoxyribose sugar in DNA. The present experiments, performed as a function of the collision energy of the ions and the tunable photoionization energy, provide key parameters for the theoretical modelling of the effect of radiation dose, like the absolute cross sections for producing protonated furan (furanH+) and a radical cation (furan˙+), the most abundant products, which can amount up to 200 Å2 at very low collision energies (<1.0 eV). The experimental results show that furanH+ is more fragile, indicating how the protonation of the sugar component of the DNA may favor its dissociation with possible major radiosensitizing effects. Moreover, the ring opening of furanH+ isomers and the potential energy surface of the most important fragmentation channels have been explored by molecular dynamics simulations and quantum chemistry calculations. The results show that, in the most stable isomer of furanH+, the ring opening occurs via a low energy pathway with carbon-oxygen bond cleavage, followed by the loss of neutral carbon monoxide and the formation of the allyl cation CH2CHCH2+, which instead is not observed in the fragmentation of furan˙+. At higher energies the ring opening through the carbon-carbon bond is accompanied by the loss of formaldehyde, producing HCCCH2+, the most intense fragment ion detected in the experiments. This work highlights the importance of the secondary processes, like the ion-molecule reactions at low energies in the radiation damage due to their very large cross sections, and it aims to provide benchmark data for the development of suitable models to approach this low collision energy range.

Soluble organic molecules in samples of the carbonaceous asteroid (162173) Ryugu.

The Hayabusa2 spacecraft collected samples from the surface of the carbonaceous near-Earth asteroid (162173) Ryugu and brought them to Earth. The samples were expected to contain organic molecules, which record processes that occurred in the early Solar System. We analyzed organic molecules extracted from the Ryugu surface samples. We identified a variety of molecules containing the atoms CHNOS, formed by methylation, hydration, hydroxylation, and sulfurization reactions. Amino acids, aliphatic amines, carboxylic acids, polycyclic aromatic hydrocarbons, and nitrogen-heterocyclic compounds were detected, which had properties consistent with an abiotic origin. These compounds likely arose from an aqueous reaction on Ryugu's parent body and are similar to the organics in Ivuna-type meteorites. These molecules can survive on the surfaces of asteroids and be transported throughout the Solar System.

Monitoring the Light-induced Isomerisation of the Prototypical Polycyclic Aromatic Hydrocarbons C10 H8 + through Ion-Molecule Reactions.

Structural rearrangements in ions are essential for understanding the composition and evolution of energetic and chemically active environments. This study explores the interconversion routes for simple polycyclic aromatic hydrocarbons, namely naphthalene and azulene radical cations (C10 H8 + ), by combining mass spectrometry and vacuum ultraviolet tunable synchrotron radiation through the chemical monitoring technique. Products of ion-molecule reactions are used to probe C10 H8 + structures that are formed as a function of their internal energies. Isomerisation from azulene radical cation towards naphthalene radical cation in a timescale faster than 80 µs was monitored, whereas no reverse isomerisation was observed in the same time window. When energising C10 H8 + with more than 6 eV, the reactivity of C10 H8 + unveils the formation of a new isomeric group with a contrasted reactivity compared with naphthalene and azulene cations. We tentatively assigned these structures to phenylvinylacetylene cations.

Structural Elucidation of C6 H4 +. Using Chemical Reaction Monitoring: Charge Transfer Versus Bond Forming Reactions.

Mass spectrometry is a powerful tool but when used on its own, without specific activation of ions, the ion mass is the single observable and the structural information is absent. One way of retrieving this information is by using ion-molecule reactions. We propose a general method to disentangle isomeric structures by combining mass spectrometry, tunable synchrotron light source, and quantum-chemistry calculations. We use reactive chemical monitoring technique, which consists in tracking reactivity changes as a function of photoionization energy i. e. the ionic structure. We illustrate the power of this technique with charge transfer reactions of C6 H4 +. isomers with allene and propyne and discuss its universal applicability. Furthermore, we emphasize the special reactivity characteristics of distonic ions, where strong charge transfer reactivity but very limited reactivity involving bond formation and following cleavages were observed and attributed to the unconventional ortho-benzyne distonic cation.

Study of the Reactivity of CH3COOH+• and COOH+ Ions with CH3NH2: Evidence of the Formation of New Peptide-like C(O)-N Bonds.

Acetamide, a small organic compound containing a peptide bond, was observed in the interstellar medium, but reaction pathways leading to the formation of this prebiotic molecule remain uncertain. We investigated the possible formation of a peptide-like bond from the reaction between acetic acid (CH3-COOH) and methylamine (CH3-NH2) that were identified in the interstellar medium. From an experimental point of view, a quadrupole/octopole/quadrupole mass spectrometer was used in combination with synchrotron radiation as a tunable source of VUV photons for monitoring the reactivity of selected ions. Acetic acid was photoionized, and the reactivity of CH3COOH+• as well as COOH+ (produced from either acetic acid or formic acid) ions with neutral CH3NH2 was further studied. With no surprise, charge transfer, proton transfer, and concomitant dissociation processes were found to largely dominate the reactivity. However, a C(O)-N bond formation process between the two reactants was also evidenced, with a weak cross section reaction. From a theoretical point of view, results concerning reactivity and barrier heights were obtained using density functional theory, with the LC-ωPBE range-separated functional in combination with the 6-311++G(d,p) Pople basis set and are in perfect agreement with the experimental data.

Enhancing data acquisition for the analysis of complex organic matter in direct-infusion Orbitrap mass spectrometry using micro-scans.

RATIONALE: Acquisition quality in analytical science is key to obtaining optimal data from a sample. In very high-resolution mass spectrometry, quality is driven by the optimization of multiple parameters, including the use of scans and micro-scans (or transients) for performing a Fourier transformation. METHODS: Thirty-nine mass spectra of a single synthesized complex sample were acquired using various numbers of scans and micro-scans determined through a simple experimental design. An electrospray ionization source coupled with an LTQ Orbitrap XL™ mass spectrometer was used, and acquisition was performed using a single mass range. All the resulting spectra were treated in the same way to enable comparisons of assigned stoichiometric formulae between acquisitions. RESULTS: Converting the number of scans into micro-scans enhances signal quality by lowering noise and reducing artifacts. This modification also increases the number of attributed stoichiometric formulae for an equivalent acquisition time, giving access to a larger molecular diversity for the analyzed complex sample. CONCLUSIONS: For complex samples, the use of long acquisition times leads to optimal data quality, and the use of micro-scans instead of scans-only maximizes the number of attributed stoichiometric formulae.

Isotope Effects in the Predissociation of Excited States of N2 + Produced by Photoionization of 14N2 and 15N2 at Energies Between 24.2 and 25.6 eV.

Photoelectron/photoion imaging spectrometry employing dispersed VUV radiation from the SOLEIL synchrotron has been used to study the predissociation of N2 + states located up to 1.3 eV above the ion's first dissociation limit. Branching ratios for unimolecular decay into either N2 + or N+ were obtained by measuring coincidences between threshold electrons and mass-selected product ions, using a supersonic beam of either 14N2 or 15N2 as photoionization target. The results confirm that predissociation of the C 2 Σ u + state of 14N2 + is faster than emission to the electronic ground-state by a factor 10 or more for all vibrational levels v' ≥ 3, while for 15N2 + the two decay modes have comparable probabilities for the levels v' = 3, 4, and 5. In contrast, no significant isotope effect could be observed for the other states of N2 + identified in the photoelectron spectrum. For both 14N2 + and 15N2 + isotopologues all vibrational levels of these other states decay to an extent of at least 95% by predissociation.

The Role of Ultrahigh Resolution Fourier Transform Mass Spectrometry (FT-MS) in Astrobiology-Related Research: Analysis of Meteorites and Tholins.

It is an important but also a challenging analytical problem to understand the chemical composition and structure of prebiotic organic matter that is present in extraterrestrial materials. Its formation, evolution and content in the building blocks ("seeds") for more complex molecules, such as proteins and DNA, are key questions in the field of exobiology. Ultrahigh resolution mass spectrometry is one of the best analytical techniques that can be applied because it provides reliable information on the chemical composition and structure of individual components of complex organic mixtures. Prebiotic organic material is delivered to Earth by meteorites or generated in laboratories in simulation (model) experiments that mimic space or atmospheric conditions. Recent representative examples for ultrahigh resolution mass spectrometry studies using Fourier-transform (FT) mass spectrometers such as Orbitrap and ion cyclotron resonance (ICR) mass spectrometers are shown and discussed in the present article, including: (i) the analysis of organic matter of meteorites; (ii) modeling atmospheric processes in ICR cells; and (iii) the structural analysis of laboratory made tholins that might be present in the atmosphere and surface of Saturn's largest moon, Titan.

Doubly-charged ions in the planetary ionospheres: a review.

This paper presents a review of the current knowledge on the doubly-charged atomic and molecular positive ions in the planetary atmospheres of the Solar System. It is focused on the terrestrial planets which have a dense atmosphere of N(2) or CO(2), i.e. Venus, the Earth and Mars, but also includes Titan, the largest satellite of Saturn, which has a dense atmosphere composed mainly of N(2) and a few percent of methane. Given the composition of these neutral atmospheres, the following species are considered: C(++), N(++), O(++), CH(4)(++), CO(++), N(2)(++), NO(++), O(2)(++), Ar(++) and CO(2)(++). We first discuss the status of their detection in the atmospheres of planets. Then, we provide a comprehensive review of their complex and original photochemistry, production and loss processes. Synthesis tables are provided for those ions, while a discussion on individual species is also provided. Methods for detecting doubly-charged ions in planetary atmospheres are presented, namely with mass-spectrometry, remote sensing and fine plasma density measurements. A section covers some original applications, like the possible effect of the presence of doubly-charged ions on the escape of an atmosphere, which is a key topic of ongoing planetary exploration, related to the evolution of a planet. The results of models, displayed in a comparative way for Venus, Earth, Mars and Titan, are discussed, as they can predict the presence of doubly-charged ions and will certainly trigger new investigations. Finally we give our view concerning next steps, challenges and needs for future studies, hoping that new scientific results will be achieved in the coming years and feed the necessary interdisciplinary exchanges amongst different scientific communities.

Photoionization of a protein isolated in vacuo.

Gas phase VUV single-photon photoionization spectroscopy of electrospray-produced multiply protonated cytochrome c protein (12 kDa) has been performed by means of coupling a linear quadrupole ion trap with a synchrotron beamline. The thresholds for the ionization of the 8+ and 11+ charge state precursors to radical 9+ and 12+ species were measured to be 12.75 ± 0.10 and 13.51 ± 0.10 eV, respectively.

Crossed-beam scattering studies of electron-transfer processes between the dication CO2(2+) and neutral CO2: electronic states of reactants and products involved.

Crossed-beam scattering experiments were carried out at collision energies of 4.51 and 2.71 eV to elucidate the electronic states involved in the nondissociative and dissociative electron-transfer reactions observed following CO(2)(2+)/CO(2) collisions. Specifically, we focus on the observation that, in the dissociative electron-transfer reaction, forming CO(+), the majority of the CO(+) product ions are formed via electron capture by the CO(2)(2+) rather than via ejection of an electron from the neutral CO(2) reaction partner. The main channels resulting in nondissociative electron transfer are reactions of the ground (X(3)Sigma(g)(-)) and excited states of CO(2)(2+) to give different combinations of the ground and excited states of the product pair of CO(2)(+) ions in which the combination AA appears to be significant. The CO(+) ions appear mainly to arise from slow dissociation of CO(2)(+)(b(4)Pi(u)) formed following electron capture by the ground state of the dication reactant (X(3)Sigma(g)(-)), with possible contributions from electron capture by higher triplet excited states of the dication.

Tholinomics--chemical analysis of nitrogen-rich polymers.

The polymeric composition of Titan's tholins--laboratory analogues of Titan's aerosols--is elucidated using high-resolution mass spectrometry. This complex organic matter is produced by plasma discharge in a gaseous nitrogen-methane mixture and analyzed with a hybrid linear trap/orbitrap mass-spectrometer. The highly structured mass spectra are treated with tools developed for petroleomics (Kendrick and van Krevelen diagrams), with original adaptations for nitrogen-rich compounds. Our goal is to find the best chemical basis set to describe the compositional space that these polymers occupy, to shed light onto the chemical structure of tholins. We succeeded in assigning the molecules identified in the mass spectra of tholins to a small number of regularly distributed X-(CH(2))(m)(HCN)(n) families, where the balanced copolymer (m = n) is determined to play a central role. Within each family, the polymer lengths n and m present Poisson-type distributions. We also identify the smallest species of a subset of families as linear and cyclic amino nitrile compounds of great astrobiological interest: biguanide, guanidin, acetamidine, aminoacetonitrile, and methylimidazole.

Fast ion-molecule reactions in planetary atmospheres: a semiempirical capture approach.

The description of planetary and interstellar chemistry relies strongly on ion-molecule reaction rate data collected at room temperature or above. However, the temperature in the ionospheres of planets and in the interstellar medium can decrease down to 100 K and 10 K, respectively. We present here a simple semiempirical method to extend available measurements towards those temperatures. Our approach is based on the long-range capture theory combined with room temperature data. Results are presented for cation-molecule and anion-molecule reactions. An overall good agreement is observed between our model and various experimental data in the temperature range 20-295 K. Deviations larger than a factor of 2 are found, however, with ion trap measurements below approximately 50 K. Predictions are also made for reactions of carbon chain and hydrocarbon ions with atomic hydrogen, of particular importance in Titan's atmosphere and in interstellar clouds.

Very high resolution mass spectrometry of HCN polymers and tholins.

HCN polymers are complex organic solids resulting from the polymerization of hydrogen cyanide (HCN) molecules. They have been suspected to contribute to the refractory carbonaceous component of comets as well as the distributed CN sources in cometary atmospheres. Titan's tholins are also organic compounds produced in a laboratory setting but result from the complex chemistry between N2 and CH4 induced by UV radiation or electric discharges. Some of these compounds have optical properties in the visible range fairly similar to those of Titan's aerosols or those of the reddish surfaces of many icy satellites and small bodies. It has been proposed that HCN polymers are constituents of tholins but this statement has never received any clear demonstration. We report here on the comparative analysis of tholins and HCN polymers in order to definitely establish if the molecules identified in the HCN polymers are present in the tholins as well. First, we present a global comparison of HCN polymers with three kinds of tholins, using elemental analysis measurements, infrared spectroscopy and very high resolution mass spectrometry of their soluble fraction. We show that the chemical composition of the HCN polymers is definitely simpler than that of any of the tholins studied. Second, we focus on six ions representative of the composition of HCN polymers and using mass spectrometry (HRMS and MS/HRMS), we determine that these tholins contain at best a minor fraction of this kind of HCN polymers.

A semiempirical capture model for fast neutral reactions at low temperature.

The description of Titan's chemistry relies strongly on reaction rate data collected at room temperature or above. However, the temperature in the atmosphere of Titan ranges from 70 to 200 K. We describe here a simple theoretical method to extend the available measurements toward those temperatures. It is based on the long-range capture theory combined with room temperature data. First results are presented for 28 neutral reactions involving atomic carbon, CN, CH, and C(2)H radicals and are compared to low-temperature Cinétique de Réaction en Ecoulement Supersonique Uniforme measurements. A good agreement is observed, to within a factor of 2, for most reactions in the temperature range 13-295 K. Predictions are made for reactions of the CN radical with hydrocarbons and nitriles of particular importance in Titan's atmosphere.

Laboratory studies of molecular growth in the Titan ionosphere.

Experimental simulations of the initial steps of the ion-molecule reactions occurring in the ionosphere of Titan were performed at the synchrotron source Elettra in Italy. The measurements consisted of irradiating gas mixtures with a monochromatic photon beam, from the methane ionization threshold at 12.6 eV, up to and beyond the molecular nitrogen dissociative ionization threshold at 24.3 eV. Three gas mixtures of increasing complexity were used: N(2)/CH(4) (0.96/0.04), N(2)/CH(4)/C(2)H(2) (0.96/0.04/0.001), and N(2)/CH(4)/C(2)H(2)/C(2)H(4) (0.96/0.04/0.001/0.001). The resulting ions were detected with a high-resolution (1 T) FT-ICR mass spectrometer as a function of time and VUV photon energy. In order to interpret the experimental results, a Titan ionospheric model was adapted to the laboratory conditions. This model had previously allowed the identification of the ions detected in the Titan upper atmosphere by the ion neutral mass spectrometer (INMS) onboard the Cassini spacecraft. Comparison between observed and modeled ion densities validates the kinetic model (reactions, rate constants, product branching ratios) for the primary steps of molecular growth. It also reveals differences that we attribute to an intense surface chemistry. This result implies that heterogeneous chemistry on aerosols might efficiently produce HCN and NH(3) in the Titan upper atmosphere.

Competition of electron transfer, dissociation, and bond-forming processes in the reaction of the CO(2)(2+) dication with neutral CO(2).

The bimolecular reactivity of the CO(2)(2+) dication with neutral CO(2) is investigated using triple quadrupole and ion-ion coincidence mass spectrometry. Crucial for product analysis is the use of appropriate isotope labelling in the quadrupole experiments in order to distinguish the different reactive pathways. The main reaction corresponds to single-electron transfer from the neutral reagent to the dication, i.e. CO(2)(2+) + CO(2) --> 2CO(2)(+); this process is exothermic by almost 10 eV, if ground state monocations are formed. Interestingly, the results indicate that the CO(2)(+) ion formed when the dication accepts an electron dissociates far more readily than the CO(2)(+) ion formed from the neutral CO(2) molecule. This differentiation of the two CO(2)(+) products is rationalized by showing that the population of the key dissociative states of the CO(2)(+) monocation will be favoured from the CO(2)(2+) dication rather than from neutral CO(2). In addition, two bond-forming reactions are observed as minor channels, one of which leads to CO(+) and O(2)(+) as ionic products and the other affords a long-lived C(2)O(3)(2+) dication.