Mechanisms of heterogeneous crystal growth in atomic systems: Insights from computer simulations

The displacement field associated with the freezing of a melt and its role in determining crystal growth kinetics

The atomic displacements associated with the freezing of metals and salts are calculated by treating crystal growth as an assignment problem through the use of an optimal transport algorithm. Converting these displacements into timescales based on the dynamics of the bulk liquid, we show that we can predict the activation energy for crystal growth rates, including activation energies significantly smaller than those for atomic diffusion in the liquid. The exception to this success, pure metals that freeze into face-centered cubic crystals with little to no activation energy, are discussed. The atomic displacements generated by the assignment algorithm allows us to quantify the key roles of crystal structure and liquid caging length in determining the temperature dependence of crystal growth kinetics.

Melting of superheated molecular crystals

Melting dynamics of micrometer scale, polycrystalline samples of isobutane, dimethyl ether, methyl benzene, and 2-propanol were investigated by fast scanning calorimetry. When films are superheated with rates in excess of 10⁵ K s^-1, the melting process follows zero-order, Arrhenius-like kinetics until approximately half of the sample has transformed. Such kinetics strongly imply that melting progresses into the bulk via a rapidly moving solid-liquid interface that is likely to originate at the sample's surface. Remarkably, the apparent activation energies for the phase transformation are large; all exceed the enthalpy of vaporization of each compound and some exceed it by an order of magnitude. In fact, we find that the crystalline melting kinetics are comparable to the kinetics of dielectric α-relaxation in deeply supercooled liquids. Based on these observations, we conclude that the rate of non-isothermal melting for superheated, low-molecular-weight crystals is limited by constituent diffusion into an abnormally dense, glass-like, non-crystalline phase.

Crystallization characteristics in supercooled liquid zinc during isothermal relaxation: A molecular dynamics simulation study

The crystallization characteristics in supercooled liquid Zn during isothermal relaxation were investigated using molecular dynamics simulations by adopting the cluster-type index method (CTIM) and the tracing method. Results showed that the crystallization process undergo three different stages. The size of the critical nucleus was found to be approximately 90–150 atoms in this system; the growth of nuclei proceeded via the successive formation of hcp and fcc structures with a layered distribution; and finally, the system evolved into a much larger crystal with a distinct layered distribution of hcp and fcc structures with an 8R stacking sequence of ABCBACAB by adjusting all of the atoms in the larger clusters according to a certain rule.

Structural Basis for the Inhibition of Gas Hydrates by α-Helical Antifreeze Proteins

Kinetic hydrate inhibitors (KHIs) are used commercially to inhibit gas hydrate formation and growth in pipelines. However, improvement of these polymers has been constrained by the lack of verified molecular models. Since antifreeze proteins (AFPs) act as KHIs, we have used their solved x-ray crystallographic structures in molecular modeling to explore gas hydrate inhibition. The internal clathrate water network of the fish AFP Maxi, which extends to the protein's outer surface, is remarkably similar to the {100} planes of structure type II (sII) gas hydrate. The crystal structure of this water web has facilitated the construction of in silico models for Maxi and type I AFP binding to sII hydrates. Here, we have substantiated our models with experimental evidence of Maxi binding to the tetrahydrofuran sII model hydrate. Both in silico and experimental evidence support the absorbance-inhibition mechanism proposed for KHI binding to gas hydrates. Based on the Maxi crystal structure we suggest that the inhibitor adsorbs to the gas hydrate lattice through the same anchored clathrate water mechanism used to bind ice. These results will facilitate the rational design of a next generation of effective green KHIs for the petroleum industry to ensure safe and efficient hydrocarbon flow.

The nucleation of gas hydrates near silica surfaces

Understanding the nucleation and crystal growth of gas hydrates near mineral surfaces and in confinement are critical to the methane recovery from gas hydrate reservoirs. In this work, through molecular dynamics simulation studies, we present an exploration of the nucleation behavior of methane hydrates near model hydroxylated silica surfaces. Our simulation results indicate that the nucleation of methane hydrates can initiate from the silica surfaces despite of the structural mismatch of the two solid phases. A layer of intermediate half-cage structures was observed between the gas hydrate and silica surfaces, apparently helping to minimize the free energy penalty. These results have important implications to our understanding of the effects of solid surfaces on hydrate nucleation processes.

Density based visualization for molecular simulation

Molecular visualization of structural information obtained from computer simulations is an important part of research work flow. A good visualization technique should be capable of eliminating redundant information and highlight important effects clarifying the key phenomena in the system. Current methods of presenting structural data are mostly limited to variants of the traditional ball-and-stick representation. This approach becomes less attractive when very large biological systems are simulated at microsecond timescales, and is less effective when coarse-grained models are used. Real time rendering of such large systems becomes a difficult task; the amount of information in one single frame of a simulation trajectory is enormous given the large number of particles; at the same time, each structure contains information about one configurational point of the system and no information about statistical weight of this specific configuration. In this paper we report a novel visualization technique based on spatial particle densities. The atomic densities are sampled on a high resolution 3-dimensional grid along a relatively short molecular dynamics trajectory using hundreds of configurations. The density information is then analyzed and visualized using the open-source ParaView software. The performance and capability of the method are demonstrated on two large systems simulated with the MARTINI coarse-grained force field: a lipid nanoparticle for delivering siRNA molecules and monolayers with a complex composition under conditions that induce monolayer collapse.

Nucleation of gas hydrates within constant energy systems

The early stage of formation of gas hydrates has recently attracted attention as amorphous intermediate gas hydrate structures have been observed, apparently contrary to a classical model of nucleation and some experimental observations. To date, essentially all reported molecular simulations of the nucleation of gas hydrates have been under constant temperature conditions, which does not consider the possible impacts of heat transfer on the nucleation processes. Here we show, using constant energy molecular simulations, that the nuclei at an early stage of the hydrate formation have relatively more crystalline order in comparison with those observed in previous isothermal (NPT or NVT) work. The current work suggests a more transient role for intermediate amorphous structures during hydrate nucleation, thereby providing a stronger link between molecular simulation and experimental observations. Our NVE results nevertheless support the two-step nucleation mechanism proposed in previous simulation studies under constant temperature conditions which features the initial formation of amorphous hydrate-like structures.

Observation of two-step nucleation in methane hydrates

In this work we show that homogeneous nucleation of methane hydrate can, under appropriate conditions, be a very rapid process, achieved within tens of nanoseconds. In agreement with recent experimental results on different systems, we find that the nucleation of a gas hydrate crystal appears as a two-step process. It starts with the formation of disordered solid-like structures, which will then spontaneously evolve to more recognizable crystalline forms. This previously elusive first-stage state is confirmed to be post-critical in the nucleation process, and is characterized as processing reasonable short-range structure but essentially no long-range order. Its energy, molecular diffusion and local structure reflect a solid-like character, although it does exhibit mobility over longer (tens of ns) timescales. We provide insights into the controversial issue of memory effects in methane hydrates. We show that areas locally richer in methane will nucleate much more readily, and no 'memory' of the crystal is required for fast re-crystallization. We anticipate that much richer polycrystallinity and novel methane hydrate phases could be possible.

Heterogeneous crystal growth of methane hydrate on its sII [001] crystallographic face

This paper presents a systematic molecular simulation study of the heterogeneous crystal growth of methane hydrate sII from supersaturated aqueous methane solutions. The growth of sII hydrate on the [001] crystallographic face is achieved through utilization of a recently proposed methodology, and rates of crystal growth of 1 A/ns were sustained for the molecular models and specific conditions employed in this work. Characteristics of the crystals grown as well as properties and structure of the interface are examined. Water cages with a 5(12)6(3) arrangement, which are improper to both sI and sII structures, are identified during the heterogeneous growth of sII methane hydrate. We show that the growth of a [001] face of sII hydrate can produce an sI crystalline structure, confirming that cross-nucleation of methane hydrate structures is possible. Defects consisting of two methane molecules trapped in large 5(12)6(4) cages and water molecules trapped in small and large cages are observed, where in one instance we have found a large 5(12)6(4) cage containing three water molecules.

Molecular dynamics methodology to investigate steady-state heterogeneous crystal growth

In this paper a new molecular dynamics simulation methodology to investigate steady-state heterogeneous crystal growth from a supercooled liquid is presented. The method is tested on pure component systems such as Lennard-Jonesium and water/ice, as well as multicomponent systems such as methane hydrate crystals. The setup uses periodicity in all three directions and two interfaces; at one interface, crystallization occurs, while at the other, melting is enforced by locally heating the crystal only near that interface. Steady-state conditions are achieved when the crystal is melted at the same rate as the growth occurs. A self-adaptive scheme that automatically modifies the rate of melting to match the rate of growth, crucial for establishing steady-state conditions, is described. In contrast with the recently developed method of Razul et al. [Mol. Phys. 103, 1929 (2005)], where the rates of growth (melting) were constant and the temperatures determined, the present approach fixes the supercooling temperature at the growing interface and identifies the corresponding steady-state crystal growth rate that corresponds to the thermodynamic force provided. The static properties of the interface (e.g., the interfacial widths) and the kinetics of the crystal growth are found to reproduce well previous findings. The importance of establishing steady-state conditions in such investigations is also briefly discussed.

Polymorph selection during the crystallization of Yukawa systems

Using molecular-dynamics simulations, we study the crystallization of supercooled liquids of charge-stabilized colloidal suspensions, modeled by the Yukawa (screened-Coulomb) potential. By modifying the value of the screening parameter lambda, we are able to invert the stability of the body-centered cubic (bcc) and face-centered cubic (fcc) polymorphs and study the crystal nucleation and growth in the domain of stability of each polymorph. We show that the crystallization mechanism strongly depends on the value of lambda. When bcc is the stable polymorph (lambda=3), the crystallization mechanism is straightforward. Both kinetics and thermodynamics favor the formation of the bcc particles and polymorph selection takes place early during the nucleation step. When fcc is the stable polymorph (lambda=10), the molecular mechanism is much more complex. First, kinetics favor the formation of bcc particles during the nucleation step. The growth of the post-critical nucleus proceeds through the successive cross-nucleation of the stable fcc polymorph on the metastable hcp polymorph as well as of the hcp polymorph on the fcc polymorph. As a result, polymorph selection occurs much later, i.e., during the growth step, than for lambda=3. We then extend our findings established in the case of homogeneous crystal nucleation to a situation of practical interest, i.e., when a seed of the stable polymorph is used. We demonstrate that the growth from the (111) face of a perfect fcc crystal into the melt proceeds through the same mechanisms.

Molecular Simulation of Cross-Nucleation between Polymorphs

Recent experiments report that an early nucleating crystalline structure (or polymorph) may nucleate another polymorph. We use molecular dynamics simulations to model this phenomenon known as cross-nucleation. We study the onset of crystallization in a liquid of Lennard-Jones particles cooled at a temperature 22% below the melting temperature. We show that growth proceeds through the successive cross-nucleation of the metastable hexagonal close-packed (hcp) polymorph on the stable face-centered cubic (fcc) polymorph and of the stable fcc polymorph on the metastable hcp polymorph. This finding is in agreement with the experimental results which demonstrated that the cross-nucleation of a stable polymorph on a metastable polymorph is just as likely as the cross-nucleation of a metastable polymorph on a stable polymorph. We then extend our findings established in the case of the homogeneous crystal nucleation to a situation of practical interest, i.e., when a seed of the stable polymorph is used. By studying the crystal growth from the (111) plane of a perfect fcc crystal, we show that, again, growth proceeds through the cross-nucleation of the hcp and fcc structures.

Molecular Mechanism for the Cross-Nucleation between Polymorphs

We use molecular simulations to study the early stages of crystallization in a supercooled liquid of Lennard-Jones particles. We observe the onset of concomitant polymorphism and demonstrate that this phenomenon results from the cross-nucleation of a metastable polymorph on the stable polymorph. We also show that cross-nucleation is selective as it only takes place between polymorphs of almost equivalent free energy. Our simulations provide detailed insights into the molecular mechanism underlying concomitant polymorphism and cross-nucleation between polymorphs.

Molecular Insights into the Heterogeneous Crystal Growth of sI Methane Hydrate

In this paper we report a successful molecular simulation study exploring the heterogeneous crystal growth of sI methane hydrate along its [001] crystallographic face. The molecular modeling of the crystal growth of methane hydrate has proven in the past to be very challenging, and a reasonable framework to overcome the difficulties related to the simulation of such systems is presented. Both the microscopic mechanisms of heterogeneous crystal growth as well as interfacial properties of methane hydrate are probed. In the presence of the appropriate crystal template, a strong tendency for water molecules to organize into cages around methane at the growing interface is observed; the interface also demonstrates a strong affinity for methane molecules. The maximum growth rate measured for a hydrate crystal is about 4 times higher than the value previously determined for ice I in a similar framework (Gulam Razul, M. S.; Hendry, J. G.; Kusalik, P. G. J. Chem. Phys. 2005, 123, 204722).