Svatopluk Civiš

High-energy chemistry of formamide: A unified mechanism of nucleobase formation

Significance This paper addresses one of the central problems of the origin of life research, i.e., the scenario suggesting extraterrestrial impact as the source of biogenic molecules. Likewise, the results might be relevant in the search of biogenic molecules in the universe. The work is therefore highly actual and interdisciplinary. It could be interesting for a very broad readership, from physical and organic chemists to synthetic biologists and specialists in astrobiology. The coincidence of the Late Heavy Bombardment (LHB) period and the emergence of terrestrial life about 4 billion years ago suggest that extraterrestrial impacts could contribute to the synthesis of the building blocks of the first life-giving molecules. We simulated the high-energy synthesis of nucleobases from formamide during the impact of an extraterrestrial body. A high-power laser has been used to induce the dielectric breakdown of the plasma produced by the impact. The results demonstrate that the initial dissociation of the formamide molecule could produce a large amount of highly reactive CN and NH radicals, which could further react with formamide to produce adenine, guanine, cytosine, and uracil. Based on GC-MS, high-resolution FTIR spectroscopic results, as well as theoretical calculations, we present a comprehensive mechanistic model, which accounts for all steps taking place in the studied impact chemistry. Our findings thus demonstrate that extraterrestrial impacts, which were one order of magnitude more abundant during the LHB period than before and after, could not only destroy the existing ancient life forms, but could also contribute to the creation of biogenic molecules.

On the Road from Formamide Ices to Nucleobases: IR-Spectroscopic Observation of a Direct Reaction between Cyano Radicals and Formamide in a High-Energy Impact Event

The formamide-based synthesis of nucleic acids is considered as a nonaqueous scenario for the emergence of biomolecules from inorganic matter. In the current study, we scrutinized the chemical composition of formamide ices mixed with an FeNi meteorite material treated with laser-induced dielectric breakdown plasma created in nitrogen buffer gas. These experiments aimed to capture the first steps of those chemical transformations that may lead to the formation of nucleobases during the impact of an extraterrestrial icy body containing formamide on an early Earth atmosphere. High-resolution FT-IR spectroscopy combined with quantum chemical calculations was used to analyze the volatile fraction of the products formed during such an event. We have found that the spectrum of the evaporated formamide ices is dominated by the spectral signatures of the dimeric form of formamide. Upon exposure to laser sparks, new well-defined bands appear in the spectrum centered at ~820, ~995, and ~1650 cm(-1). On the basis of quantum chemical calculations, these bands can be assigned to the absorptions of 2-amino-2-hydroxy-acetonitrile and to 2-amino-2-hydroxy-malononitrile, which are formed in a direct reaction between formamide and CN(•) radicals upon the high-energy impact event. We also show that there is an exergonic reaction route via these intermediates leading to diaminomaleonitrile, which is generally considered to play a key role in the synthesis of nucleobases.

Oxygen-isotope labeled titania: Ti18O2

(18)O-isotope labelled titania (anatase, rutile) was synthesized. The products were characterized by Raman spectra together with their quantum chemical modelling. The interaction with carbon dioxide was investigated using high-resolution FTIR spectroscopy, and the oxygen isotope exchange at the Ti(18)O(2)/C(16)O(2) interface was elucidated.

Laser ablation of FOX-7: proposed mechanism of decomposition.

A novel high-energy explosive material, FOX-7 (1,1-diamino-2,2-dinitroethylene), was studied using a combination of laser-induced breakdown spectroscopy (LIBS) and selected ion flow tube mass spectrometry (SIFT-MS). The LIBS technique uses short laser pulses (an ArF excimer laser) as the energy source to convert small quantities of a sample into plasma and to induce the emission of its molecular fragments or atoms. SIFT-MS is a novel method for absolute quantification based on chemical ionization using three reagent ions, with the ability to determine concentrations of trace gases and vapors of volatile organic compounds in real time. SIFT-MS was used to study the release of NO, NO(2), HCN, HONO, HCHO, CH(3)CH(2)OH, and C(2)H(2) after laser ablation of the explosive compound FOX-7 in solid crystalline form. The radiation emitted after excitation was analyzed using a time-resolved UV-vis spectrometer with an ICCD detector. The electronic bands of CN (388 nm), OH (308.4 nm), and NO (237.1 nm) radicals and the atomic lines of C, N, and H were identified.

A study of the composition of the products of laser-induced breakdown of hexogen, octogen, pentrite and trinitrotoluene using selected ion flow tube mass spectrometry and UV-Vis spectrometry.

Four types of explosives were studied using a combination of Laser Induced Breakdown Spectroscopy (LIBS) and Selected Ion Flow Tube Mass Spectrometry (SIFT-MS). The LIBS technique uses short laser pulses (ArF excimer laser) as the energy source to convert small amounts samples into plasma and to produce the emission from their molecular fragments or atoms. SIFT-MS is a novel method for absolute quantification based on chemical ionization using three precursor ions, with the capability to determine concentrations of trace gases and vapours of volatile organic compounds in real time. This is the first time that SIFT-MS has been used to study the release of NO, NO(2), HCN, HNO(3), HONO, HCHO and C(2)H(2) after a laser-induced breakdown of pure explosive compounds HMX (1,3,5,7-tetranitro-1,3,5,7-tetraazacyclo-octane), RDX (1,3,5-trinitro-2-oxo-1,3,5-triazacyclo-hexane), PETN (pentaerithrityl-tetranitrate) and TNT (2,4,6-trinitrotoluene) in solid form. The radiation emitted after excitation was analysed using a time resolving UV-Vis spectrometer with a ICCD detector. Electronic bands of the CN radical (388 nm), the Swan system of the C(2) radical (512 nm), the NH radical (336 nm), the OH radical (308.4 nm) and atomic lines of oxygen, nitrogen and hydrogen were identified. Vibrational and excitation temperatures were determined from the intensity distributions and a scheme of chemical reactions responsible for the formation of the observed species was proposed.

High-Energy Chemistry of Formamide: A Simpler Way for Nucleobase Formation

The formation of nucleobases from formamide during a high-energy density event, i.e., the impact of an extraterrestrial body into the planetary atmosphere, was studied by irradiation of formamide ice and liquid samples with a high-power laser in the presence of potential catalysts. FTIR spectroscopy, time-resolved emission spectroscopy, and GC-MS were subsequently used to monitor the dissociation of this molecule into stable molecular fragments (HCN, H2O, HNCO, H2, CO, and NH3) and unstable species (HNC, •CN, and •NH). The kinetic and thermodynamic models of the high-energy density event molecular dynamics have been suggested together with the reaction routes leading from the dissociation products to the nucleobases. In addition, using theoretical calculations, we propose a simple new reaction pathway for the formation of both pyrimidine and purine nucleobases involving •CN radical chemistry.

High-K (‘propeller’) states in the infrared spectrum of the Ar-CO complex

The infrared spectrum of the weakly bound complex Ar-CO has been studied in the 4·7 μm region of the CO stretching vibration by means of three complementary techniques: a continuous slit-jet supersonic expansion with a tunable diode laser, a long-path cooled cell with a tunable diode laser, and a long-path cooled cell with a Fourier transform infrared spectrometer. Previous studies have characterized states of Ar-CO with K a values up to 3 in the ground bending state, and up to 1 in the first excited bending state. Here these studies are extended up to K a = 6 by analysing subbands with K a = 4 ← 3, 3 ← 4, 5 ← 4, and 6 ← 5, and thereby obtaining subband origins, rotational parameters, and centrifugal distortion parameters which characterize these states. The results illustrate the relative stability and regularity of high-K (propeller) states, even if on close examination they are subject to perturbations, as compared with excited bending (windmill) and van der Waals stretching states in weakly bound T-sh...

HNC/HCN ratio in acetonitrile, formamide, and BrCN discharge.

Time-resolved Fourier transform (FT) spectrometry was used to study the dynamics of radical reactions forming the HCN and HNC isomers in pulsed glow discharges through vapors of BrCN, acetonitrile (CH(3)CN), and formamide (HCONH(2)). Stable gaseous products of discharge chemistry were analyzed by selected ion flow tube mass spectrometry (SIFT-MS). Ratios of concentrations of the HNC/HCN isomers obtained using known transition dipole moments of rovibrational cold bands v(1) were found to be in the range 2.2-3%. A kinetic model was used to assess the roles the radical chemistry and ion chemistry play in the formation of these two isomers. Exclusion of the radical reactions from the model resulted in a value of the HNC/HCN ratio 2 orders of magnitude lower than the experimental results, thus confirming their dominant role. The major process responsible for the formation of the HNC isomer is the reaction of the HCN isomer with the H atoms. The rate constant determined using the kinetic model from the present data for this reaction is 1.13 (±0.2) × 10(-13) cm(3) s(-1).

Laser spark formamide decomposition studied by FT-IR spectroscopy.

High-resolution FT-IR spectroscopy was used for the analysis of the products of formamide dissociation using a high-energy Asterix laser. In the experiment, the detected products of the formamide LIDB dissociation were hydrogen cyanide, ammonia, carbon monoxide, carbon dioxide, nitrous oxide, hydroxylamine, and methanol. The molecular dynamics of the process was simulated with the use of a chemical model. The chemistry shared by formamide and the products of its dissociation is discussed with the respect to the formation of biomolecules.

SUBMILLIMETER-WAVE SPECTRAL LINES OF NEGATIVE IONS (SH- AND SD-) IDENTIFIED BY THEIR DOPPLER SHIFT

For the first time submillimeter-wave transitions of an anion have been firmly identified. We observed one transition of SH− (J=1←0, 564 421.869 MHz) and two of SD− (J=1←0, 292 359.129 MHz; J=2←1, 584 629.519 MHz) created in the positive column of an electric discharge set up in a mixture of H2S and argon. By studying the Doppler shift brought about by the motion of charged species in the electric field of the discharge we were able to distinguish between positively and negatively charged ions and neutrals. We have hence shown that velocity modulation techniques commonly used for infrared spectroscopy could also be successfully applied for the study of ions in the submillimeter-wave region.