Astrochemical surface reactions are thought to be responsible for the formation of complex organic molecules, which are of potential importance for the origin of life. In a situation, when the chemical composition of dust surfaces is not precisely known, the fundamental knowledge concerning such reactions gains significance. We describe an experimental technique, which can be used to measure the energy released in reactions of a single pair of reactants. These data can be directly compared with the results of quantum chemical computations leading to unequivocal conclusions regarding the reaction pathways and the presence of energy barriers. It allows for predicting the outcomes of astrochemical surface reactions with higher accuracy compared to that achieved based on gas-phase studies. However, for the highest accuracy, some understanding of the catalytic influence of specific surfaces on the reactions is required. The new method was applied to study the reactions of C atoms with H2, O2, and C2H2. The formation of HCH, CO + O, and triplet cyclic-C3H2 products has been revealed, correspondingly.
We explore the energetics of the titular reaction, which current astrochemical databases consider open at typical dense molecular (i.e., dark) cloud conditions. As is common for reactions involving the transfer of light particles, we assume that there are no intersystem crossings of the potential energy surfaces involved. In the absence of any such crossings, we find that this reaction is endoergic and will be suppressed at dark cloud temperatures. Updating accordingly a generic astrochemical model for dark clouds changes the predicted gas-phase abundances of 224 species by greater than a fact…
We report on a many-electron wavefunction theory study for the reaction energetics of hydrogen dissociation on the Si(100) surface. We demonstrate that quantum chemical wavefunction based methods using periodic boundary conditions can predict chemically accurate results for the activation barrier and the chemisorption energy in agreement with experimental findings. These highly accurate results for the reaction energetics enable a deeper understanding of the underlying physical mechanism and make it possible to benchmark widely used density functional theory methods.
We extend the energetic variational approach so it can be applied to a chemical reaction system with general mass action kinetics. Our approach starts with an energy-dissipation law. We show that the chemical equilibrium is determined by the choice of the free energy and the dynamics of the chemical reaction is determined by the choice of the dissipation. This approach enables us to couple chemical reactions with other effects, such as diffusion and drift in an electric field. As an illustration, we apply our approach to a non-equilibrium reaction-diffusion system in a specific but canonical s…
We show that isotope-exchange reactions between ground-state alkali-metal, alkaline-earth-metal, and lanthanide heteronuclear dimers consisting of two isotopes of the same atom are exothermic with an energy change in the range of 1-8000$\,$MHz thus resulting in cold or ultracold products. For these chemical reactions there are only one rovibrational and at most several hyperfine possible product states. The number and energetics of open and closed reactive channels can be controlled by the laser and magnetic fields. We suggest a laser-induced isotope- and state-selective Stark shift control to…
We investigate the energetics of the atom exchange reaction in the SrF+alkali-metal atom and CaF+alkali-metal atom systems. Such reactions are possible only for collisions of SrF and CaF with the lithium atoms, while they are energetically forbidden for other alkali-metal atoms. Specifically, we focus on SrF interacting with Li, Rb, and Sr atoms and use ab initio methods to demonstrate that the SrF+Li and SrF+Sr reactions are barrierless. We present potential energy surfaces for the interaction of the SrF molecule with the Li, Rb, and Sr atoms in their energetically lowest-lying electronic spi…
A mathematical model for chemical reactions in electrolytes is developed using an Energy variational method consistent with classical thermodynamics. Electrostatics and chemical reactions are included in properly defined energetic and dissipative functionals. The energy variation method is generalized to deal with open systems with inputs of charge, mass, and energy. The open systems can transform input energy of one type into output energy of another type. The generalized method is used to analyze the conversion of electrical current into proton flow by cytochrome c oxidase, an important enzy…
In light of the recent discovery of ArH+ in the Crab nebula, it is shown through high-level quantum chemical comptuations that the global minima on the Ar+/Ne+ + H2 potential energy surfaces are ArH2+ and NeH2+. Hence, ArH2+ may be a necessary intermediate in the Ar+ + H2 -> ArH+ + H formation reaction proposed in the same work where ArH+ is first reported in the Crab nebula. ArH2+ is also probably an intermediate in the alternative Ar + H+2 -> ArH+ + H reaction. Additionally, it is shown that Ne+ + H2 -> NeH+2 will subsequently most likely yield Ne + H+2 and not NeH+ + H offering a possible r…
Regions of energy localization referred to as hotspots are known to govern shock initiation and the run-to-detonation in energetic materials. Mounting computational evidence points to accelerated chemistry in hotspots from large intramolecular strains induced via the interactions between the shockwave and microstructure. However, definite evidence mapping intramolecular strain to accelerated or altered chemical reactions has so far been elusive. From a large-scale reactive molecular dynamics simulation of the energetic material TATB, we map molecular temperature and intramolecular strain energ…
OH radicals play a key role as an intermediate in the water formation chemistry of the interstellar medium. For example the reaction of OH radicals with H$_2$ molecules is among the final steps in the astrochemical reaction network starting from O, O$_2$, and O$_3$. Experimentally it was shown that even at 10 K this reaction occurs on ice surfaces. As the reaction has a high activation energy only atom tunneling can explain such experimental findings. In this study we calculated reaction rate constants for the title reaction on a water-ice I$_h$ surface. To our knowledge, low-temperature rate …
Plasmonic catalysis holds significant promise for opening new reaction pathways inaccessible thermally, or for improving the efficiency of chemical processes. However, challenges persist in distinguishing photothermal effects from effects due to energetic electrons and/or holes excited in the metal comprising a plasmonic structure. Here we use a Au stripe waveguide along which surface plasmon polaritons (SPPs) propagate, operating simultaneously as a working electrode in a 3-electrode electrochemical cell. Cyclic voltammograms were obtained under SPP excitation as a function of incident optica…
When examining dynamics occurring at non-zero temperatures, both energy and entropy must be taken into account while describing activated barrier crossing events. Furthermore, good reaction coordinates need to be constructed to describe different metastable states and the transition mechanisms between them. Here we use a physics-based machine learning method called the State Predictive Information Bottleneck (SPIB) to find non-linear reaction coordinates for three systems of varying complexity. The SPIB is able to predict correctly an entropic bottleneck for an analytical flat-energy double-we…
The detection of the amino acid glycine and its amine precursor methylamine on the comet 67P/Churyumov-Gerasimenko by the Rosetta mission provides strong evidence for a cosmic origin of prebiotics on Earth. How and when such complex organic molecules form along the process of star- and planet-formation remains debated. We report the first laboratory detection of glycine formed in the solid phase through atom and radical-radical addition surface reactions under cold dense interstellar cloud conditions. Our experiments, supported by astrochemical models, suggest that glycine forms without the ne…
We theoretically characterize interactions, energetics, and chemical reaction paths in ionic two-body and three-body systems of alkali-metal and alkaline-earth-metal atoms in the context of modern experiments with cold hybrid ion-atom mixtures. Using \textit{ab initio} techniques of quantum chemistry such as the coupled-cluster method, we calculate ground-state electronic properties of all diatomic $AB^+$ and most of triatomic $A_2B^+$ molecular ions consisting of Li, Na, K, Rb, Cs, Mg, Ca, Sr, Ba, and Yb atoms. Different geometries and wave-function symmetries of the ground state are found fo…
The simultaneous detection of organic molecules of the form C$_2$H$_{\text{n}}$O, such as ketene (CH$_2$CO), acetaldehyde (CH$_3$CHO), and ethanol (CH$_3$CH$_2$OH), toward early star-forming regions offers hints of shared chemical history. Several reaction routes have been proposed and experimentally verified under various interstellar conditions to explain the formation pathways involved. Most noticeably, the non-energetic processing of C$_2$H$_2$ ice with OH-radicals and H-atoms was shown to provide formation routes to ketene, acetaldehyde, ethanol, and vinyl alcohol (CH$_2$CHOH) along the H…
We develop a thermodynamic framework for closed and open chemical networks applicable to non-elementary reactions that do not need to obey mass action kinetics. It only requires the knowledge of the kinetics and of the standard chemical potentials, and makes use of the topological properties of the network (conservation laws and cycles). Our approach is proven to be exact if the network results from a bigger network of elementary reactions where the fast-evolving species have been coarse grained. Our work should be particularly relevant for energetic considerations in biosystems where the char…
Recent advancements on the fabrication of organic micro- and nanostructures have permitted the strong collective light-matter coupling regime to be reached with molecular materials. Pioneering works in this direction have shown the effects of this regime in the excited state reactivity of molecular systems and at the same time has opened up the question of whether it is possible to introduce any modifications in the electronic ground energy landscape which could affect chemical thermodynamics and/or kinetics. In this work, we use a model system of many molecules coupled to a surface-plasmon fi…
Chemical reactions on metal surfaces are important in various processes such as heterogeneous catalysis and nanostructure growth. At moderate or lower temperatures, these reactions generally follow the minimum energy path and temperature effects can be reasonably described by a harmonic oscillator model. At a high temperature approaching the melting point of the substrate, general behaviors of surface reactions remain elusive. In this study, by taking hydrocarbon species adsorbed on Cu(111) as a model system and performing extensive molecular dynamics simulations powered by machine learning po…
A dataset of fully quantum flux-flux correlation functions and reaction rate constants was constructed for organic heterogeneous catalytic surface reactions. Gaussian process regressors were successfully fitted to training data to predict previously unseen test set reaction rate constant products and Cauchy fits of the flux-flux correlation function. The optimal regressor prediction mean absolute percent errors were on the order of 0.5% for test set reaction rate constant products and 1.0% for test set flux-flux correlation functions. The Gaussian process regressors were accurate both when loo…
Dynamics of a particle diffusing in a confinement can be seen a sequence of bulk-diffusion-mediated hops on the confinement surface. Here, we investigate the surface hopping propagator that describes the position of the diffusing particle after a prescribed number of encounters with that surface. This quantity plays the central role in diffusion-influenced reactions and determines their most common characteristics such as the propagator, the first-passage time distribution, and the reaction rate. We derive explicit formulas for the surface hopping propagator and related quantities for several …
We propose a general theoretical description of chemical reactions occurring on a catalytic surface with heterogeneous reactivity. The propagator of a diffusion-reaction process with eventual absorption on the heterogeneous partially reactive surface is expressed in terms of a much simpler propagator toward a homogeneous perfectly reactive surface. In other words, the original problem with general Robin boundary condition that includes in particular mixed Robin-Neumann condition, is reduced to that with Dirichlet boundary condition. Chemical kinetics on the surface is incorporated as a matrix …
The compartmentalization of chemical reactions within droplets has advantages in low costs, reduced consumption of reagents and increased throughput. Reactions in small droplets have also been shown to greatly accelerate the rate of many chemical reactions. The accelerated growth rate of nanobubbles from nanodroplet reactions is demonstrated in this work. The gaseous products from the reaction at the nanodroplet surface promoted nucleation of hydrogen nanobubbles within multiple organic liquid nanodroplets. The nanobubbles were confined within the droplets and selectively grew and collapsed at…
We study diffusion of particles on the surface of a sphere toward a partially reactive circular target with partly reversible binding kinetics. We solve the coupled diffusion-reaction equations and obtain the exact expressions for the time-dependent concentration of particles and the total diffusive flux. Explicit asymptotic formulas are derived in the small target limit. This study reveals the strong effects of reversible binding kinetics onto diffusion-mediated reactions that may be relevant for many biochemical reactions on cell membranes.
Biphasic chemical reactions compartmentalized in small droplets offer advantages, such as streamlined procedures for chemical analysis, enhanced chemical reaction efficiency and high specificity of conversion. In this work, we experimentally and theoretically investigate the rate for biphasic chemical reactions between acidic nanodroplets on a substrate surface and basic reactants in a surrounding bulk flow. The reaction rate is measured by droplet shrinkage as the product is removed from the droplets by the flow. In our experiments, we determine the dependence of the reaction rate on the flow…
