Illusory spirals and loops in crystal growth

Discontinuous Dissolution Mechanism of Olivine Deduced from a Topography Observation Method

Olivine dissolution plays an important role in environmental science and technology, from controlling global element circulation to carbon capture for climate change mitigation. Most studies have been focused on investigating its dissolution rates by monitoring chemical effluent changes under various conditions. However, only by observation of surface reactivity can we unravel the actual mechanism (s) of dissolution. Here, we studied the dissolution of an olivine (010) plane in a flow-through reaction cell with an acidic solution, a surface-controlled regime, and far-from-equilibrium conditions. Direct mineral surface topography measurements using vertical scanning interferometry and atomic force microscopy allowed for quantitative analyses of the spatial and temporal changes in the dissolution rate. The (010) plane dissolved discontinuously in time for different surface sites, resulting in a heterogeneously distributed rate map. Pits with different depths showed opposite dissolution rate distributions from the dislocation center to further out from the etch pit. Based on the step-wave model, we propose a mechanism of dissolution that is governed by the competition between Gibbs free energy of the dissolution process, ΔG, and the critical free energy of the opening of etch pits, i.e., ΔGcrit. The migration of step waves, the distribution of surface defects, the strain field of etch pits, and other dynamic elements, resulting in the instantaneous change of ΔGcrit on the surface, are important factors leading to the discontinuous dissolution of crystal materials. This discontinuous dissolution provides new insight into the guidance of crystalline mineral applications and the prediction of material properties regarding mineral dissolution variation.

β-1,3-Glucan synthesis, novel supramolecular self-assembly, characterization and application

β-1,3-Glucans are ubiquitously observed in various biological systems with diverse physio-ecological functions, yet their underlying assembly mechanism and multiscale complexation in vitro remains poorly understood. Here, we provide for the first-time evidence of unidentified β-1,3-glucan supramolecular complexation into intricate hierarchical architectures over several length scales. We mediated these unique assemblies using a recombinantly produced β-1,3-glucan phosphorylase (Ta1,3BGP) by fine-tuning solution conditions during particle nucleation and growth. We report a synthesis of interconnected parallel hexagonal lamellae composed of 8 nm thick sheets of highly expanded paracrystals. The architecture consists of β-1,3-glucan triple-helices with considerable inter-intra hydrogen bonding within, as well as in between adjacent triple-helices. The results extend our understanding of β-1,3-glucan molecular organization and shed light on different aspects of the crystallization processes of biomolecules into structures unseen by nature. The presented versatile synthesis yields new materials for diverse medical and industrial applications.

Emergence of local geometric laws of step flow in homoepitaxial growth

Below the roughening transition, crystal surfaces exhibit nanoscale line defects, steps, that move by exchanging atoms with their environment. In homoepitaxy, we analytically show how the motion of a step train in vacuum under strong desorption can be approximately described by nonlinear laws that depend on local geometric features such as the curvature of each step, as well as suitably defined effective terrace widths. We assume that each step edge, a free boundary, can be represented by a smooth curve in a fixed reference plane for sufficiently long times. Besides surface diffusion and evaporation, the processes under consideration include kinetic step-step interactions in slowly varying geometries, material deposition on the surface from above, attachment and detachment of atoms at steps, step edge diffusion, and step permeability. Our methodology relies on boundary integral equations for the adatom fluxes responsible for step flow. By applying asymptotics, which effectively treat the diffusive term of the free boundary problem as a singular perturbation, we describe an intimate connection of universal character between step kinetics and local geometry.

Disrupting Crystal Growth through Molecular Recognition: Designer Therapies for Kidney Stone Prevention

Aberrant crystallization within the human body can lead to several disease states or adverse outcomes, yet much remains to be understood about the critical stages leading to these events, which can include crystal nucleation and growth, crystal aggregation, and the adhesion of crystals to cells. Kidney stones, which are aggregates of single crystals with physiological origins, are particularly illustrative of pathological crystallization, with 10% of the U.S. population experiencing at least one stone occurrence in their lifetimes. The human record of kidney stones is more than 2000 years old, as noted by Hippocrates in his renowned oath and much later by Robert Hooke in his treatise Micrographia. William Hyde Wollaston, who was a physician, chemist, physicist, and crystallographer, was fascinated with stones, leading him to discover an unusual stone that he described in 1810 as cystic oxide, later corrected to cystine. Despite this long history, however, a fundamental understanding of the stages of stone formation and the rational design of therapies for stone prevention have remained elusive.This Account reviews discoveries and advances from our laboratories that have unraveled the complex crystal growth mechanisms of l-cystine, which forms l-cystine kidney stones in at least 20 000 individuals in the U.S. alone. Although l-cystine stones affect fewer individuals than common calcium oxalate stones, they are usually larger, recur more frequently, and are more likely to cause chronic kidney disease. Real-time in situ atomic force microscopy (AFM) reveals that the crystal growth of hexagonal l-cystine is characterized by a complex mechanism in which six interlaced anisotropic spirals grow synchronously, emanating from a single screw dislocation to generate a micromorphology with the appearance of stacked hexagonal islands. In contrast, proximal heterochiral dislocations produce features that appear to be spirals but actually are closed loops, akin to a Frank-Read source. These unusual and aesthetic growth patterns can be explained by the coincidence of the dislocation Burgers vector and the crystallographic 6₁ screw axis. Inhibiting l-cystine crystal growth is key to preventing stone formation. Decades of studies of "tailor-made additives", which are imposter molecules that closely resemble the solute and bind to crystal faces through molecular recognition, have demonstrated their effects on crystal properties such as morphology and polymorphism. The ability to visualize crystal growth in real time by AFM enables quantitative measurements of step velocities and, by extension, the effect of prospective inhibitors on growth rates, which can then be used to deduce inhibition mechanisms. Investigations with a wide range of prospective inhibitors revealed the importance of precise molecular recognition for binding l-cystine imposters to crystal sites, which results in step pinning and the inhibition of step advancement as well as the growth of bulk crystals. Moreover, select inhibitors of crystal growth, measured in vitro, reduce or eliminate stone formation in knockout mouse models of cystinuria, promising a new pathway to l-cystine stone prevention. These observations have wide-ranging implications for the design of therapies based on tailor-made additives for diseases associated with aberrant crystallization, from disease-related stones to "xenostones" that form in vivo because of the crystallization of low-solubility therapeutic agents such as antiretroviral agents.

In situ nanopores enrichment of Mesh-like palladium nanoplates for bifunctional fuel cell reactions: A joint etching strategy

Two-dimensional (2D) nanomaterials with nanopore display an enhancement effect on electrocatalysis behavior, whereas the nanopore engineering for 2D nanocatalysts remains an insurmountable challenge. We advance the synthesis of multilayer Pd nanoplates (Pd NPs) and two types of meshy nanoplates (Pd LMNPs/MNPs) with escalating nanopores from none and sparse to porous. Specially, an in situ nanopore enrichment on these Pd nanoplates hinges on a joint etching strategy with integrated manipulation of reaction kinetics. The optimized Pd MNPs exhibit exceptional oxygen reduction reaction performance, owing to the enhanced intermediates protonation on Pd site neighboring nanopore, which has been elucidated by density functional theory calculations. In addition, Pd MNPs also deliver excellent performances in fuel cell anodic reactions, including ethanol oxidation reaction and formic acid oxidation reaction. This study highlights a new strategy for in situ nanopores engineering, providing a prospect for designing superior nanocatalysts.

Reversible magnetic spiral domain

The various spiral structures that exist in nature inspire humanity because of their morphological beauty, and spiral structures are used in various fields, including architecture, engineering, and art. Spiral structures have their own winding directions, and in most spirals, it is difficult to reverse the predetermined winding direction. Here, we show that a rotating spiral exists in magnetic systems for which the winding direction can be easily reversed. A magnetization vector basically has a spiral motion combining a precessional and a damping motion. The application of these basic mechanics to a system composed of magnetic vectors that are affected by a radial current and the Dzyaloshinskii–Moriya interaction forms the rotating magnetic spiral. The winding direction of the magnetic spiral has its own stability, but the direction can be changed using an external magnetic field. This magnetic spiral has a finite size, and the magnetic domain is destroyed at the edge of the spiral, which can create magnetic skyrmions.

Single-Handed Double Helix and Spiral Platelet Formed by Racemate of Dissymmetric Cages

Spontaneous deracemization has been used to separate homochiral domains from the racemic system. However, homochirality can only be referred to when the scales of these domains and systems are specified. To clarify this, we report self-assembly of racemates of dissymmetric cages DC-1 with a cone-shape propeller geometry, forming a centrosymmetric columnar crystalline phase (racemic at crystallographic level). Owing to their anisotropic geometry, the two enantiomers are packed in a frustrated fashion in this crystalline phase; single-handed double helices are observed (single-handedness at supramolecular level). The frustrated packing (layer continuity break-up) in turn facilitates screw dislocation during the crystal growth, forming left- or right-handed spiral platelets (symmetry-breaking at morphological level), although each platelet is composed of DC-1 racemates. The symmetry correlation between DC-1 molecules, the crystalline phase and spiral platelets, all exhibit C₃ symmetry.

A combined approach to characterize ligand-induced solid-solid phase transitions in biomacromolecular crystals

Solid-solid phase transitions (SSPTs) are widespread naturally occurring phenomena. Understanding the molecular mechanisms and kinetics of SSPTs in various crystalline materials, however, has been challenging due to technical limitations. In particular, SSPTs in biomacromolecular crystals, which may involve large-scale changes and particularly complex sets of interactions, are largely unexplored, yet may have important implications for time-resolved crystallography and for developing synthetic biomaterials. The adenine riboswitch (riboA) is an RNA control element that uses ligand-induced conformational changes to regulate gene expression. Crystals of riboA, upon the addition of a ligand, undergo an SSPT from monoclinic to triclinic to orthorhombic. Here, solution atomic force microscopy (AFM) and polarized video microscopy (PVM) are used to characterize the multiple transition states throughout the SSPT in both the forward and the reverse directions. This contribution describes detailed protocols for growing crystals directly on mica or glass surfaces for AFM and PVM characterization, respectively, as well as methods for image processing and phase-transition kinetics analysis.

Taphonomic patterns mimic biologic structures: diagenetic Liesegang rings in Mesozoic coleoids and coprolites

Because of physiology of coleoids, their fossils preserve soft-tissue-remains more often than other cephalopods. Sometimes, the phosphatized soft-tissues, particularly parts of the muscular mantle, display dark circular patterns. Here, we showcase that these patterns, here documented for fossil coleoids from the Jurassic of Germany and the Cretaceous of Lebanon, superficially resemble chromatophores (which enable living coleoids to alter their coloration). We examined and chemically analyzed the circular structures in these specimens, describe them, and discuss their genesis. Based on their structure and color, we visually differentiate between three types of circles. By comparison with similar structures, we suggest that these structures are not biogenic but Liesegang rings, which formed due to reaction-diffusion processes very soon after death.

Imaging defects in vanadium(iii) oxide nanocrystals using Bragg coherent diffractive imaging

Here, Fohtung and colleagues capture nanoscale three-dimensional defects in vanadium(iii) oxide nanocrystals using X-ray Bragg coherent diffractive imaging.

Lasing from an Organic Micro-Helix

Organic solid-state semiconductor lasers are attracting ever-increasing interest for their potential application in future photonic circuits. Despite the great progress made in recent years, an organic laser from 3D chiral structures has not been achieved. Now, the first example of an organic nano-laser from the micro-helix structure of an achiral molecule is presented. Highly regular micro-helixes with left/right-handed helicity from a distyrylbenzene derivative (HM-DSB) were fabricated and characterized under microscope spectrometers. These chiral micro-helixes exhibit unique photonic properties, including helicity-dependent circularly polarized luminescence (CPL), periodic optical waveguiding, and length-dependent amplified spontaneous emission (ASE) behavior. The successful observation of laser behavior from the organic micro-helix extends our understanding to morphology chirality of organic photonic materials and provides a new design strategy towards chiral photonic circuits.

Complexing Agent Directed Growth of α-Zirconium Phosphate-Based Hexagonal Prisms

A layered prism is an ideal system for fundamental studies due to its unique structure with uniform-sized sheets. However, there are very limited reports in the last few decades on the preparation of such materials. In this contribution, we report for the first time the preparation of α-ZrP intercalation compound-based hexagonal prisms. Preferential crystal growth perpendicular to the (001) crystal plane of α-ZrP intercalation compounds was achieved by incorporating a complexing agent and a layer growth coordinator into a crystal growth reaction system. With the presence of a layer growth coordinator to coordinate the crystal growth perpendicular to the (001) crystal plane and the presence of a complexing agent to slow down the crystal growth rate, the previously unknown layer growth coordination effect is revealed. After a facile ion exchange treatment, pure α-ZrP hexagonal prisms can also be obtained.

Cystinuria: genetic aspects, mouse models, and a new approach to therapy

Cystinuria, a genetic disorder of cystine transport, is characterized by excessive excretion of cystine in the urine and recurrent cystine stones in the kidneys and, to a lesser extent, in the bladder. Males generally are more severely affected than females. The disorder may lead to chronic kidney disease in many patients. The cystine transporter (b^0,+) is a heterodimer consisting of the rBAT (encoded by SLC3A1) and b^0,+AT (encoded by SLC7A9) subunits joined by a disulfide bridge. The molecular basis of cystinuria is known in great detail, and this information is now being used to define genotype-phenotype correlations. Current treatments for cystinuria include increased fluid intake to increase cystine solubility and the administration of thiol drugs for more severe cases. These drugs, however, have poor patient compliance due to adverse effects. Thus, there is a need to reduce or eliminate the risks associated with therapy for cystinuria. Four mouse models for cystinuria have been described and these models provide a resource for evaluating the safety and efficacy of new therapies for cystinuria. We are evaluating a new approach for the treatment of cystine stones based on the inhibition of cystine crystal growth by cystine analogs. Our ongoing studies indicate that cystine diamides are effective in preventing cystine stone formation in the Slc3a1 knockout mouse model for cystinuria. In addition to crystal growth, crystal aggregation is required for stone formation. Male and female mice with cystinuria have comparable levels of crystalluria, but very few female mice form stones. The identification of factors that inhibit cystine crystal aggregation in female mice may provide insight into the gender difference in disease severity in patients with cystinuria.

Dislocations in molecular crystals

Dislocations in molecular crystals remain terra incognita. Owing to the complexity of molecular structure, dislocations in molecular crystals can be difficult to understand using only the foundational concepts devised over decades for hard materials. Herein, we review the generation, structure, and physicochemical consequences of dislocations in molecular crystals. Unlike metals, ceramics, and semiconductors, molecular crystals are often characterized by flexible building units of low symmetry, thereby limiting analysis, complicating modeling, and prompting new approaches to elucidate their role in crystallography from growth to mechanics. Such considerations affect applications ranging from plastic electronics and mechanical actuators to the tableting of pharmaceuticals.

Dislocation driven spiral and non-spiral growth in layered chalcogenides

Two-dimensional materials have shown great promise for implementation in next-generation devices. However, controlling the film thickness during epitaxial growth remains elusive and must be fully understood before wide scale industrial application. Currently, uncontrolled multilayer growth is frequently observed, and not only does this growth mode contradict theoretical expectations, but it also breaks the inversion symmetry of the bulk crystal. In this work, a multiscale theoretical investigation aided by experimental evidence is carried out to identify the mechanism of such an unconventional, yet widely observed multilayer growth in the epitaxy of layered materials. This work reveals the subtle mechanistic similarities between multilayer concentric growth and spiral growth. Using the combination of experimental demonstration and simulations, this work presents an extended analysis of the driving forces behind this non-ideal growth mode, and the conditions that promote the formation of these defects. Our study shows that multilayer growth can be a result of both chalcogen deficiency and chalcogen excess: the former causes metal clustering as nucleation defects, and the latter generates in-domain step edges facilitating multilayer growth. Based on this fundamental understanding, our findings provide guidelines for the narrow window of growth conditions which enables large-area, layer-by-layer growth.

Elucidating "screw dislocation"-driven film formation of sodium thiosulphate with complex hierarchical molecular assembly

Sodium thiosulphate (Na₂S₂O₃) films were synthesized on carbon steel substrates through solution deposition, and a film formation growth mechanism is delineated in detail herein. Dislocation-driven film formation took place at the lower concentration of Na₂S₂O₃ (0.1 M) studied, where screw dislocation loops were identified. Interestingly, we observed the co-existence of screw dislocation spiral loops and hierarchically-ordered molecular assembly in the film, and showed the importance of hierarchical morphology in the origin of screw dislocation. The screw dislocation loops were, however, distorted at the higher studied concentration of Na₂S₂O₃ (0.5 M), and no hierarchical structures were formed. The mechanisms of film formation are discussed in detail and provide new insights into our understanding regarding morphology of the hierarchical molecular assembly, screw dislocation loop formation, and the role of chemical elements for their development. The main crystalline and amorphous phases in the surface films were identified as pyrite/mackinawite and magnetite. As sodium thiosulphate is widely used for energy, corrosion inhibition, nanoparticle synthesis and catalysis applications, the knowledge generated in this study is applicable to the fields of corrosion, materials science, materials chemistry and metallurgy.

Role of Molecular Recognition in l-Cystine Crystal Growth Inhibition

l-Cystine kidney stones-aggregates of single crystals of the hexagonal form of l-cystine-afflict more than 20 000 individuals in the United States alone. Current therapies are often ineffective and produce adverse side effects. Recognizing that the growth of l-cystine crystals is a critical step in stone pathogenesis, real-time in situ atomic force microscopy of growth on the (0001) face of l-cystine crystals and measurements of crystal growth anisotropy were performed in the presence of prospective inhibitors drawn from a 31-member library. The most effective molecular imposters for crystal growth inhibition were l-cystine mimics (aka molecular imposters), particularly l-cystine diesters and diamides, for which a kinetic analysis revealed a common inhibition mechanism consistent with Cabrera-Vermilyea step pinning. The amount of inhibitor incorporated by l-cystine crystals, estimated from kinetic data, suggests that imposter binding to the {0001} face is less probable than binding of l-cystine solute molecules, whereas imposter binding to {101̅0} faces is comparable to that of l-cystine molecules. These estimates were corroborated by computational binding energies. Collectively, these findings identify the key structural factors responsible for molecular recognition between molecular imposters and l-cystine crystal kink sites, and the inhibition of crystal growth. The observations are consistent with the reduction of l-cystine stone burden in mouse models by the more effective inhibitors, thereby articulating a strategy for stone prevention based on molecular design.

l-Cystine Diamides as l-Cystine Crystallization Inhibitors for Cystinuria

l-Cystine bismorpholide (1a) and l-cystine bis(N'-methylpiperazide) (1b) were seven and twenty-four times more effective than l-cystine dimethyl ester (CDME) in increasing the metastable supersaturation range of l-cystine, respectively, effectively inhibiting l-cystine crystallization. This behavior can be attributed to inhibition of crystal growth at microscopic length scale, as revealed by atomic force microscopy. Both 1a and 1b are more stable than CDME, and 1b was effective in vivo in a knockout mouse model of cystinuria.

Organic Nanoflowers from a Wide Variety of Molecules Templated by a Hierarchical Supramolecular Scaffold

Nanoflowers (NFs) are flowered-shaped particles with overall sizes or features in the nanoscale. Beyond their pleasing aesthetics, NFs have found a number of applications ranging from catalysis, to sensing, to drug delivery. Compared to inorganic based NFs, their organic and hybrid counterparts are relatively underdeveloped mostly because of the lack of a reliable and versatile method for their construction. We report here a method for constructing NFs from a wide variety of biologically relevant molecules (guests), ranging from small molecules, like doxorubicin, to biomacromolecules, like various proteins and plasmid DNA. The method relies on the encapsulation of the guests within a hierarchically structured particle made from supramolecular G-quadruplexes. The size and overall flexibility of the guests dictate the broad morphological features of the resulting NFs, specifically, small and rigid guests favor the formation of NFs with spiky petals, while large and/or flexible guests promote NFs with wide petals. The results from experiments using confocal fluorescence microscopy, and scanning electron microscopy provides the basis for the proposed mechanism for the NF formation.

How does your crystal grow? A commentary on Burton, Cabrera and Frank (1951) 'The growth of crystals and the equilibrium structure of their surfaces'

The key ideas presented in the classic paper 'The growth of crystals and the equilibrium structure of their surfaces' by W. K. Burton, N. Cabrera and F. C. Frank, published in Philosophical Transactions A in 1951, are summarized and put in the context of both the state of knowledge at the time of publication and the considerable amount of work since that time that has built on and developed these ideas. Many of these developments exploit the huge increase in the capabilities of computer modelling that complement the original analytic approach of the paper. The dearth of relevant experimental data at the time of the original publication has been transformed by the application of increasingly sophisticated modern methods of surface science. This commentary was written to celebrate the 350th anniversary of the journal Philosophical Transactions of the Royal Society.