Three parallel algorithms for classical molecular dynamics are presented. The first assigns each processor a fixed subset of atoms; the second assigns each a fixed subset of inter-atomic forces to compute; the third assigns each a fixed spatial region. The algorithms are suitable for molecular dynamics models which can be difficult to parallelize efficiently—those with short-range forces where the neighbors of each atom change rapidly. They can be implemented on any distributed-memory parallel machine which allows for message-passing of data between independently executing processors. The algorithms are tested on a standard Lennard-Jones benchmark problem for system sizes ranging from 500 to 100,000,000 atoms on several parallel supercomputers--the nCUBE 2, Intel iPSC/860 and Paragon, and Cray T3D. Comparing the results to the fastest reported vectorized Cray Y-MP and C90 algorithm shows that the current generation of parallel machines is competitive with conventional vector supercomputers even for small problems. For large problems, the spatial algorithm achieves parallel efficiencies of 90% and a 1840-node Intel Paragon performs up to 165 faster than a single Cray C9O processor. Trade-offs between the three algorithms and guidelines for adapting them to more complex molecular dynamics simulations are also discussed.

Fast parallel algorithms for short-range molecular dynamics

Nanometre-scale graphitic capillaries with atomically flat walls are engineered and studied, revealing unexpectedly fast transport of liquid water through channels that accommodate only a few layers of water. Artificial nanometre-sized capillaries have enabled new research and led to the emergence of nanofluidics, but surface roughness in particular makes it very challenging to exactly control their dimensions. Andre Geim and colleagues now show that van der Waals assembly can produce narrow and smooth capillaries that have atomically flat top and bottom graphite sheets, separated by spacers made from a precisely controlled number of graphene layers. Water transport through the channels, which range in height from a single atomic plane to dozens of them, is unexpectedly fast and speeds up further in channels that accommodate only a few layers of water. The fabrication method is expected to give access to a wide range of capillaries with atomically precise sizes, and with permeation properties that are tunable by the choice of two-dimensional material used for creating the channel walls. Nanometre-scale pores and capillaries have long been studied because of their importance in many natural phenomena and their use in numerous applications1. A more recent development is the ability to fabricate artificial capillaries with nanometre dimensions, which has enabled new research on molecular transport and led to the emergence of nanofluidics2,3,4. But surface roughness in particular makes it challenging to produce capillaries with precisely controlled dimensions at this spatial scale. Here we report the fabrication of narrow and smooth capillaries through van der Waals assembly5, with atomically flat sheets at the top and bottom separated by spacers made of two-dimensional crystals6 with a precisely controlled number of layers. We use graphene and its multilayers as archetypal two-dimensional materials to demonstrate this technology, which produces structures that can be viewed as if individual atomic planes had been removed from a bulk crystal to leave behind flat voids of a height chosen with atomic-scale precision. Water transport through the channels, ranging in height from one to several dozen atomic planes, is characterized by unexpectedly fast flow (up to 1 metre per second) that we attribute to high capillary pressures (about 1,000 bar) and large slip lengths. For channels that accommodate only a few layers of water, the flow exhibits a marked enhancement that we associate with an increased structural order in nanoconfined water. Our work opens up an avenue to making capillaries and cavities with sizes tunable to angstrom precision, and with permeation properties further controlled through a wide choice of atomically flat materials available for channel walls.

Molecular transport through capillaries made with atomic-scale precision

In the field of nanofluidics, it has been an ultimate but seemingly distant goal to controllably fabricate capillaries with dimensions approaching the size of small ions and water molecules. We report ion transport through ultimately narrow slits that are fabricated by effectively removing a single atomic plane from a bulk crystal. The atomically flat angstrom-scale slits exhibit little surface charge, allowing elucidation of the role of steric effects. We find that ions with hydrated diameters larger than the slit size can still permeate through, albeit with reduced mobility. The confinement also leads to a notable asymmetry between anions and cations of the same diameter. Our results provide a platform for studying the effects of angstrom-scale confinement, which is important for the development of nanofluidics, molecular separation, and other nanoscale technologies.

Size effect in ion transport through angstrom-scale slits

Review of the litterature available outside the petroleum industry concerning wettability. This litterature discusses surface forces and their effects on wettability, including van der Waal and electrostatic forces. Hydrogen bonding and ion/water interactions, are also discussed. Advancing and receding contact angles for oil/water/mineral systems in terms of these surface forces are described.

Wettability : fundamentals and surface forces

Biological tissues generally exhibit excellent anisotropic mechanical properties owing to their well-developed microstructures. Inspired by the aligned structure in muscles, a highly anisotropic, strong, and conductive wood hydrogel is developed by fully utilizing the high-tensile strength of natural wood, and the flexibility and high-water content of hydrogels. The wood hydrogel exhibits a high-tensile strength of 36 MPa along the longitudinal direction due to the strong bonding and cross-linking between the aligned cellulose nanofibers (CNFs) in wood and the polyacrylamide (PAM) polymer. The wood hydrogel is 5 times and 500 times stronger than the bacterial cellulose hydrogels (7.2 MPa) and the unmodified PAM hydrogel (0.072 MPa), respectively, representing one of the strongest hydrogels ever reported. Due to the negatively charged aligned CNF, the wood hydrogel is also an excellent nanofluidic conduit with an ionic conductivity of up to 5 × 10-4 S cm-1 at low concentrations for highly selective ion transport, akin to biological muscle tissue. The work offers a promising strategy to fabricate a wide variety of strong, anisotropic, flexible, and ionically conductive wood-based hydrogels for potential biomaterials and nanofluidic applications.

https://onlinelibrary.wiley.com/doi/pdf/10.1002/adma.202103732

Muscle‐Inspired Highly Anisotropic, Strong, Ion‐Conductive Hydrogels

Thanks to its unique features at the nanoscale, nanofluidics, the study and application of fluid flow in nanochannels/nanopores with at least one characteristic size smaller than 100 nm, has enabled the occurrence of many interesting transport phenomena and has shown great potential in both bio- and energy-related fields. The unprecedented growth of this research field is apparently attributed to the rapid development of micro/nanofabrication techniques. In this review, we summarize recent activities and achievements of nanofabrication for nanofluidic devices, especially those reported in the past four years. Three major nanofabrication strategies, including nanolithography, microelectromechanical system based techniques, and methods using various nanomaterials, are introduced with specific fabrication approaches. Other unconventional fabrication attempts which utilize special polymer properties, various microfabrication failure mechanisms, and macro/microscale machining techniques are also presented. Based on these fabrication techniques, an inclusive guideline for materials and processes selection in the preparation of nanofluidic devices is provided. Finally, technical challenges along with possible opportunities in the present nanofabrication for nanofluidic study are discussed.

/pdf/review-article-fabrication-of-nanofluidic-devices-44dwqgr8ys.pdf

Review article: Fabrication of nanofluidic devices

Superfast water transport discovered in graphitic nanoconduits, including carbon nanotubes and graphene nanochannels, implicates crucial applications in separation processes and energy conversion. Yet lack of complete understanding at the single-conduit level limits development of new carbon nanofluidic structures and devices with desired transport properties for practical applications. Here, we show that the hydraulic resistance and slippage of single graphene nanochannels can be accurately determined using capillary flow and a novel hybrid nanochannel design without estimating the capillary pressure. Our results reveal that the slip length of graphene in the graphene nanochannels is around 16 nm, albeit with a large variation from 0 to 200 nm regardless of the channel height. We corroborate this finding with molecular dynamics simulation results, which indicate that this wide distribution of the slip length is due to the surface charge of graphene as well as the interaction between graphene and its silica substrate.

Fast water transport in graphene nanofluidic channels

Nanofluidics is the study of fluids under nanoscale confinement, where small-scale effects dictate fluid physics and continuum assumptions are no longer fully valid. At this scale, because of large surface-area-to-volume ratios, the fluid interaction with boundaries becomes more pronounced, and both short-range steric/hydration forces and long-range van der Waals forces and electrostatic forces dictate fluid behavior. These forces lead to a spectrum of anomalous transport and thermodynamic phenomena such as ultrafast water flow, enhanced ion transport, extreme phase transition temperatures, and slow biomolecule diffusion, which have been the subject of extensive computational studies. Experimental quantification of these phenomena was also enabled by the advent of nanofluidic technology, which has transformed challenging nanoscale fluid measurements into facile optical and electrical recordings. Our groups' focus is to investigate nanoscale (2 to 103 nm) fluid behaviors in the context of fluid mechanics and thermodynamics through the development of novel nanofluidic tools, to examine the applicability of classical equations at the nanoscale, to identify the source of deviations, and to explore new physics emerging at this scale. In this Account, we summarize our recent findings regarding liquid transport, vaporization, and condensation of nanoscale-confined liquids. Our study of nanoscale water transport identified an additional resistance in hydrophilic nanochannels, attributed to the reduced cross-sectional area caused by the formation of an immobile hydration layer on the surfaces. In contrast, a reduction in flow resistance was discovered in graphene-coated hydrophobic nanochannels, due to water slippage on the graphene surface. In the context of vaporization, the kinetic-limited evaporation flux was measured and found to exceed the classical theoretical prediction by an order of magnitude in hydrophilic nanochannels/nanopores as a result of the thin film evaporation outside of the apertures. This factor was eliminated by modifying the hydrophobicity of the aperture's exterior surface, enabling the identification of the true kinetic limits inside nanoconfinements and a crucial confinement-dependent evaporation coefficient. The transport-limited evaporation dynamics was also quantified, where experimental results confirmed the parallel diffusion-convection resistance model in both single nanoconduits and nanoporous systems at high accuracy. Furthermore, we have extended our studies to different aspects of condensation in nanoscale-confined spaces. The initiation of condensation for a single-component hydrocarbon was observed to follow the Kelvin equation, whereas for hydrocarbon mixtures it deviated from classical theory because of surface-selective adsorption, which has been corroborated by simulations. Moreover, the condensation dynamics deviates from the bulk and is governed by either vapor transport or liquid transport depending on the confinement scale. Overall, by using novel nanofluidic devices and measurement strategies, our work explores and further verifies the applicability of classical fluid mechanics and thermodynamic equations such as the Navier-Stokes, Kelvin, and Hertz-Knudsen equations at the nanoscale. The results not only deepen our understanding of the fundamental physical phenomena of nanoscale fluids but also have important implications for various industrial applications such as water desalination, oil extraction/recovery, and thermal management. Looking forward, we see tremendous opportunities for nanofluidic devices in probing and quantifying nanoscale fluid thermophysical properties and more broadly enabling nanoscale chemistry and materials science.

Exploring Anomalous Fluid Behavior at the Nanoscale: Direct Visualization and Quantification via Nanofluidic Devices.

Nanoscale liquid transport governs the behaviour of a wide range of nanofluidic systems, yet remains poorly characterized and understood due to the enormous hydraulic resistance associated with the nanoconfinement and the resulting minuscule flow rates in such systems. To overcome this problem, here we present a new measurement technique based on capillary flow and a novel hybrid nanochannel design and use it to measure water transport through single 2-D hydrophilic silica nanochannels with heights down to 7 nm. Our results show that silica nanochannels exhibit increased mass flow resistance compared to the classical hydrodynamics prediction. This difference increases with decreasing channel height and reaches 45% in the case of 7 nm nanochannels. This resistance increase is attributed to the formation of a 7-angstrom-thick stagnant hydration layer on the hydrophilic surfaces. By avoiding use of any pressure and flow sensors or any theoretical estimations the hybrid nanochannel scheme enables facile and precise flow measurement through single nanochannels, nanotubes, or nanoporous media and opens the prospect for accurate characterization of both hydrophilic and hydrophobic nanofluidic systems.

/pdf/accurate-measurement-of-liquid-transport-through-nanoscale-2b81isxua6.pdf

Accurate measurement of liquid transport through nanoscale conduits

Carbon nanofluidic structures made of carbon nanotubes or graphene/graphene oxide have shown great promise in energy and environment applications due to the newly discovered fast and selective mass transport. However, they have yet to be utilized in nanofluidic devices for lab-on-a-chip applications because of great challenges in their fabrication and integration. Herein we report the fabrication of two-dimensional planar graphene nanochannel devices and the study of ion transport inside a graphene nanochannel array. A MEMS fabrication process that includes controlled nanochannel etching, graphene wet transfer, and vacuum anodic bonding is developed to fabricate graphene nanochannels where graphene conformally coats the channel surfaces. We observe higher ionic conductance inside the graphene nanochannels compared with silica nanochannels with the same geometries at low electrolyte concentrations (10-6 M-10-2 M). Enhanced electroosmotic flow due to the boundary slip at graphene surfaces is attributed to the measured higher conductance in the graphene nanochannels. Our results also suggest that the surface charge on the graphene surface, originating from the dissociation of oxygen-containing functional groups, is crucial to the enhanced electroosmotic flow inside the nanochannels.

Quan Xie

Papers

Review article: Fabrication of nanofluidic devices

Fast water transport in graphene nanofluidic channels

Exploring Anomalous Fluid Behavior at the Nanoscale: Direct Visualization and Quantification via Nanofluidic Devices.

Accurate measurement of liquid transport through nanoscale conduits

Ion transport in graphene nanofluidic channels