High-energy-density extended CO solid

Covalently bonded extended phases of molecular solids made of first- and second-row elements at high pressures are a new class of materials with advanced optical, mechanical and energetic properties. The existence of such extended solids has recently been demonstrated using diamond anvil cells in several systems, including nitrogen, carbon dioxide and carbon monoxide. However, the microscopic quantities produced at the formidable high-pressure/temperature conditions have limited the characterization of their predicted novel properties, including high-energy content. In this paper, we present experimental evidence that these extended low-Z solids are indeed high-energy-density materials, by milligram-scale high-pressure synthesis, recovery and characterization of polymeric CO (p-CO). Our spectroscopic data reveal that p-CO is a random polymer made of lactonic entities and conjugated C=C with an energy content rivalling or exceeding that of HMX (cyclo-tetramethylene tetranitramine, a commonly used conventional high explosive). Solid p-CO explosively decomposes to CO(2) and glassy carbon, and thus might be used as an advanced energetic material.     

New chemistry of transition metal oxyhydrides

Abstract

In this review we describe recent advances in transition metal oxyhydride chemistry obtained by topochemical routes, such as low temperature reduction with metal hydrides, or high-pressure solid-state reactions. Besides the crystal chemistry, magnetic and transport properties of the bulk powder and epitaxial thin film samples, the remarkable lability of the hydride anion is particularly highlighted as a new strategy to discover unprecedented mixed anion materials.     

25th Anniversary Article: Design of Polymethine Dyes for All‐Optical Switching Applications: Guidance from Theoretical and Computational Studies

All‐optical switching—controlling light with light—has the potential to meet the ever‐increasing demand for data transmission bandwidth. The development of organic π‐conjugated molecular materials with the requisite properties for all‐optical switching applications has long proven to be a significant challenge. However, recent advances demonstrate that polymethine dyes have the potential to meet the necessary requirements. In this review, we explore the theoretical underpinnings that guide the design of π‐conjugated materials for all‐optical switching applications. We underline, from a computational chemistry standpoint, the relationships among chemical structure, electronic structure, and optical properties that make polymethines such promising materials.     

Nano- and micromechanical properties of hierarchical biological materials and tissues

The mechanical properties of biological materials have been the focal point of extensive studies over the past decades, leading to formation of a new research field that intimately connects biology, chemistry and materials science. Significant advances have been made in many disciplines and research areas, ranging throughout a variety of material scales, from atomistic, molecular up to continuum scales. Experimental studies are now carried out with molecular precision, including investigations of how molecular defects such as protein mutations or protein knockout influence larger length- and time-scales. Simulation studies of biological materials now range from electronic structure calculations of DNA, molecular simulations of proteins and biomolecules like actin and tubulin to continuum theories of bone and collagenous tissues. The integration of predictive numerical studies with experimental methods represents a new frontier in materials research. The field is at a turning point when major breakthroughs in the understanding, synthesis, control and analysis of complex biological systems emerge. Here we provide a brief perspective of the state of this field and outline new research directions.     

Programming chemistry in DNA-addressable bioreactors

We present a formal calculus, termed the chemtainer calculus, able to capture the complexity of compartmentalized reaction systems such as populations of possibly nested vesicular compartments. Compartments contain molecular cargo as well as surface markers in the form of DNA single strands. These markers serve as compartment addresses and allow for their targeted transport and fusion, thereby enabling reactions of previously separated chemicals. The overall system organization allows for the set-up of programmable chemistry in microfluidic or other automated environments. We introduce a simple sequential programming language whose instructions are motivated by state-of-the-art microfluidic technology. Our approach integrates electronic control, chemical computing and material production in a unified formal framework that is able to mimic the integrated computational and constructive capabilities of the subcellular matrix. We provide a non-deterministic semantics of our programming language that enables us to analytically derive the computational and constructive power of our machinery. This semantics is used to derive the sets of all constructable chemicals and supermolecular structures that emerge from different underlying instruction sets. Because our proofs are constructive, they can be used to automatically infer control programs for the construction of target structures from a limited set of resource molecules. Finally, we present an example of our framework from the area of oligosaccharide synthesis.     

Towards an atomistic understanding of apatite–collagen biomaterials: linking molecular simulation studies of complex-, crystal- and composite-formation to experimental findings

The investigation of the atomistic mechanisms of crystal nucleation constitutes a major challenge to both experiment and theory. Understanding the underlying principles of composite materials formation represents an even harder task. For the investigation of the mechanisms of crystal nucleation a profound knowledge of the ion–solvent and the ion–ion interactions in solution is required. Studying biocomposites like fluorapatite–collagen materials, we must furthermore account for the biomolecules and their effect on the growth process. Molecular simulation approaches directly offer atomistic resolution and hence appear particularly suited for detailed mechanistic analyses. However, the computational effort is typically immense and for a long time the investigation of crystal nucleation from atomistic simulations was considered as impossible. We therefore developed special simulation strategies, which allowed to considerably extent the limitations of computational studies in this field. In combination with advanced experimental investigations this provided new insights into the nucleation of biomimetic apatite–gelatin composites and the mechanisms of hierarchical growth at the micro- and mesoscopic scale. Along this line, molecular simulation studies reflect a powerful tool to achieve a profound understanding of the complex growth processes of apatite/collagen composites. Apart from reviewing related work we outline future directions and discuss the perspectives of simulation studies for the investigation of biomineralization processes in general.     

Grain boundary structure,chemistry, and failure

Abstract

The goal of this paper is to provide a review of the interrelationship between grain boundary structure, chemistry, and failure. The main thrust of the paper is that one must consider structure and chemistry in order to assess various failure mechanisms and that one must also address these issues in high angle, asymmetric grain boundaries. One of the key themes of the paper is that the boundary is best considered as a chain of molecular or structural units and that, during such processes as fracture or sliding, the ability of the boundary to sample many of these units determines whether or not a material will ultimately fail. The ease of sampling different boundary structures will depend on the chemical composition of the boundary.     

Extending the scope of ‘in silico experiments’: Theoretical approaches for the investigation of reaction mechanisms, nucleation events and phase transitions

The investigation of the atomistic mechanisms of processes in complex systems constitutes a major challenge to both theory and experiment. While experimental studies offer a wide variety of insights at the macroscopic scale, the atomistic level of detail often remains elusive. On the other hand, molecular simulation approaches may easily achieve microscopic resolution and hence appear particularly suited for detailed mechanistic analyses. However, the computational effort is typically quite considerable and in many cases special simulation strategies are needed to make simulations possible. This review is dedicated to special approaches for tackling the time/length-scale problem inherent to molecular dynamics simulations. Employing these techniques opened a series of new perspectives. The latter are illustrated with the example of recent simulation studies of the atomistic mechanisms involved in complex processes like crystal nucleation, phase transitions and reactions in solution. Along this line, we discuss the reaction mechanisms for He insertion into C₆₀ fullerenes, nucleation events and domain morphogenesis in pressure-induced phase transitions in solids and ion aggregation from solution.     

Reactive Structural Materials: Preparation and Characterization

Reactive structural materials, which can serve both as structural elements as well as a source of chemical energy released upon initiation have emerged as an important class of metal‐based composites for use in various energetic systems. Such materials rely on a variety of exothermic reactions, from oxidation to formation of metal‐metalloid and intermetallic phases. The rates of these reactions are as important as the energy that may be released, in order for them to occur at the time scales compatible with the requirements of applications. Therefore, chemical composition, scale at which reactive components are mixed, and the structure and morphology of materials are important and can be controlled by the method of preparation and compaction of the composite materials. Methods of preparation of the composite structures are briefly reviewed as well as methods of characterization of their mechanical and energetic properties. In addition to common thermo‐analytical and static mechanical property measurements, dynamic tests of mechanical properties as well as ignition and combustion experiments are necessary to understand the fragmentation, initiation, and heat release expected for these materials when they are stimulated by an impact, shock, or rapid heating. Reaction mechanisms are studied presently for the thin layers and small samples of reactive materials initiated in carefully designed experiments. In other experiments, impact and explosive initiation are characterized for larger material compacts in the conditions imitating practical scenarios. Examples of results describing thermal, impact, and explosive initiation of some of the reactive materials are presented.

     

Random-phase approximation and its applications in computational chemistry and materials science

The random-phase approximation (RPA) as an approach for computing the electronic correlation energy is reviewed. After a brief account of its basic concept and historical development, the paper is devoted to the theoretical formulations of RPA, and its applications to realistic systems. With several illustrating applications, we discuss the implications of RPA for computational chemistry and materials science. The computational cost of RPA is also addressed which is critical for its widespread use in future applications. In addition, current correction schemes going beyond RPA and directions of further development will be discussed.     

From designer clusters to synthetic crystalline nanoassemblies

Clusters have the potential to serve as building blocks of materials, enabling the tailoring of materials with novel electronic or magnetic properties. Historically, there has been a disconnect between magic clusters found in the gas phase and the synthetic assembly of cluster materials. We approach this challenge through a proposed protocol that combines gas-phase investigations to examine feasible units, theoretical investigations of energetic compositional diagrams and geometrical shapes to identify potential motifs, and synthetic chemical approaches to identify and characterize cluster assemblies in the solid state. Through this approach, we established As7(3-) as a potential stable species via gas-phase molecular beam experiments consistent with its known existence in molecular crystals with As to K ratios of 7:3. Our protocol also suggests another variant of this material. We report the synthesis of a cluster compound, As7K1.5(crypt222-K)1.5, composed of a lattice of As7 clusters stabilized by charge donation from cryptated K atoms and bound by sharing K atoms. The bond dimensions of this supercluster assembled material deduced by X-ray analysis are found to be in excellent agreement with the theoretical calculations. The new compound has a significantly larger band gap than the hitherto known solid. Thus, our approach allows the tuning of the electronic properties of solid cluster assemblies.     

Chemomechanics of complex materials: challenges and opportunities in predictive kinetic timescales

What do nanoscopic biomolecular complexes between the cells that line our blood vessels have in common with the microscopic silicate glass fiber optics that line our communication highways, or with the macroscopic steel rails that line our bridges? To be sure, these are diverse materials which have been developed and studied for years by distinct experimental and computational research communities. However, the macroscopic functional properties of each of these structurally complex materials pivots on a strong yet poorly understood interplay between applied mechanical states and local chemical reaction kinetics. As is the case for many multiscale material phenomena, this chemomechanical coupling can be abstracted through computational modeling and simulation to identify key unit processes of mechanically altered chemical reactions. In the modeling community, challenges in predicting the kinetics of such structurally complex materials are often attributed to the so-called rough energy landscape, though rigorous connection between this simple picture and observable properties is possible for only the simplest of structures and transition states. By recognizing the common effects of mechanical force on rare atomistic events ranging from molecular unbinding to hydrolytic atomic bond rupture, we can develop perspectives and tools to address the challenges of predicting macroscopic kinetic consequences in complex materials characterized by rough energy landscapes. Here, we discuss the effects of mechanical force on chemical reactivity for specific complex materials of interest, and indicate how such validated computational analysis can enable predictive design of complex materials in reactive environments.     

Tight-binding molecular dynamics for materials simulations

Summary Tight-binding molecular dynamics has recently emerged as a useful method for atomistic simulation of the structural, dynamical and electronic properties of realistic materials. The method incorporates quantum-mechanical calculations into molecular dynamics through an empirical tight-binding Hamiltonian and bridges the gap between ab initio molecular dynamics and simulations using empirical classical potentials. In this paper, we review the accuracy, efficiency, and predictive power of the method and discuss some opportunities and challenges for future development.     

Towards a predictive thermal explosion model for energetic materials

We present an overview of models and computational strategies for simulating the thermal response of high explosives using a multi-physics hydrodynamics code, ALE3D. Recent improvements to the code have aided our computational capability in modeling the behavior of energetic materials systems exposed to strong thermal environments such as fires. We apply these models and computational techniques to a thermal explosion experiment involving the slow heating of a confined explosive. The model includes the transition from slow heating to rapid deflagration in which the time scale decreases from days to hundreds of microseconds. Thermal, mechanical, and chemical effects are modeled during all phases of this process. The heating stage involves thermal expansion and decomposition according to an Arrhenius kinetics model while a pressure-dependent burn model is employed during the explosive phase. We describe and demonstrate the numerical strategies employed to make the transition from slow to fast dynamics. In addition, we investigate the sensitivity of wall expansion rates to numerical strategies and parameters. Results from a one-dimensional model show that violence is influenced by the presence of a gap between the explosive and container. In addition, a comparison is made between 2D model and measured results for the explosion temperature and tube wall expansion profiles.Approved for public release; distribution is unlimited. The work was performed under the auspices of the U.S. Department of Energy by the University of California, Lawrence Livermore National Laboratory under Contract No. W-7405-Eng-48.     

First-principles quantum chemistry in the life sciences

The area of computational quantum chemistry, which applies the principles of quantum mechanics to molecular and condensed systems, has developed drastically over the last decades, due to both increased computer power and the efficient implementation of quantum chemical methods in readily available computer programs. Because of this, accurate computational techniques can now be applied to much larger systems than before, bringing the area of biochemistry within the scope of electronic-structure quantum chemical methods. The rapid pace of progress of quantum chemistry makes it a very exciting research field; calculations that are too computationally expensive today may be feasible in a few months' time! This article reviews the current application of 'first-principles' quantum chemistry in biochemical and life sciences research, and discusses its future potential. The current capability of first-principles quantum chemistry is illustrated in a brief examination of computational studies on neurotransmitters, helical peptides, and DNA complexes.     

Coupling atomistics and continuum in solids: status, prospects, and challenges

The recent focus of the scientific community on multiscale computer modeling techniques of nano-engineered materials stems from the desire to develop more realistic methodologies that are capable of accurately describing the varied time and length scales associated with this class of materials. Of importance is the ability to model the atomistic region using the appropriate techniques such as quantum mechanics/molecular dynamics, and the continuum region using homogenized properties. The continuity of atomistic and continuum regions in a solid necessitates a seamless coupling between these two regions. This is carried out using a transition region. In view of the large discrepancy between length and time scales in atomistic and continuum regions, the development of the transition region has been the main concern of the research community. It is the purpose of this review to critically discuss the issues concerning the transition region and the efforts made by the scientific community in treating them. In particular, this review addresses issues concerning the coupling of molecular dynamics to finite element modeling techniques. Three aspects of this review are accordingly considered. The first is concerned with the current state of atomistic–continuum coupling techniques in computational mechanics. The second is concerned with present the research conducted in the Engineering Mechanics and Design Laboratory at the University of Toronto in the field of nano-reinforced interfaces. Finally, we present the limitations of the current techniques and suggestions for improvements.     

A divide-and-conquer/cellular-decomposition framework for million-to-billion atom simulations of chemical reactions

To enable large-scale atomistic simulations of material processes involving chemical reactions, we have designed linear-scaling molecular dynamics (MD) algorithms based on an embedded divide-and-conquer (EDC) framework: first principles-based fast reactive force-field (F-ReaxFF) MD; and quantum-mechanical MD in the framework of the density functional theory (DFT) on adaptive multigrids. To map these O(N) algorithms onto parallel computers with deep memory hierarchies, we have developed a tunable hierarchical cellular-decomposition (THCD) framework, which achieves performance tunability through a hierarchy of parameterized cell data/computation structures and adaptive load balancing through wavelet-based computational-space decomposition. Benchmark tests on 1920 Itanium2 processors of the NASA Columbia supercomputer have achieved unprecedented scales of quantum-mechanically accurate and well validated, chemically reactive atomistic simulations—0.56 billion-atom F-ReaxFF MD and 1.4 million-atom (0.12 trillion grid points) EDC–DFT MD—in addition to 18.9 billion-atom non reactive space–time multiresolution MD. The EDC and THCD frameworks expose maximal data localities, and consequently the isogranular parallel efficiency on 1920 processors is as high as 0.953. Chemically reactive MD simulations have been applied to shock-initiated detonation of energetic materials and stress-induced bond breaking in ceramics in corrosive environments.     

Theoretical and computational hierarchical nanomechanics of protein materials: Deformation and fracture

Proteins constitute the building blocks of biological materials such as tendon, bone, skin, spider silk or cells. An important trait of these materials is that they display highly characteristic hierarchical structures, across multiple scales, from nano to macro. Protein materials are intriguing examples of materials that balance multiple tasks, representing some of the most sustainable material solutions that integrate structure and function. Here we review progress in understanding the deformation and fracture mechanisms of hierarchical protein materials by using a materials science approach to develop structure-process-property relations, an effort defined as materiomics. Deformation processes begin with an erratic motion of individual atoms around flaws or defects that quickly evolve into formation of macroscopic fractures as chemical bonds rupture rapidly, eventually compromising the integrity of the structure or the biological system leading to failure. The combination of large-scale atomistic simulation, multi-scale modeling methods, theoretical analyses combined with experimental validation provides a powerful approach in studying deformation and failure phenomena in protein materials. Here we review studies focused on the molecular origin of deformation and fracture processes of three types of protein materials. The review includes studies of collagen - Nature’s super-glue; beta-sheet rich protein structures as found in spider silk - a natural fiber that can reach the strength of a steel cable; as well as intermediate filaments - a class of alpha-helix based structural proteins responsible for the mechanical integrity of eukaryotic cells. The article concludes with a discussion of the significance of universally found structural patterns such as the staggered collagen fibril architecture or the alpha-helical protein motif.     

The development of carbon dots: From the perspective of materials chemistry

The advance of materials chemistry has influenced significantly the lifestyle of mankind. By virtue of their fascinating physicochemical nature – including ultrasmall size (<10 nm), rich functional groups, fluorescence, chemical stability, biocompatibility, and nontoxicity – carbon dots have been acclaimed as another epoch-making carbon-based nanomaterial following on from fullerene, nanotubes, and graphene. However, the field of carbon dot-based materials chemistry remains incomplete because of their wide structural diversity, meaning that much fundamental knowledge still needs to be uncovered. Herein, this review proposed several novel viewpoints in term of carbon dot-based material chemistry, including the development history, classification, design principle and applications of carbon dots-based materials. Finally, several sound prospects in this fascinating filed are also given.