arXiv subjects

Subin Sahu

Publications and source records attributed to Subin Sahu.

9 recordsLinked to original sources

arXiv2020

Diffusion Limitations and Translocation Barriers in Atomically Thin Biomimetic Pores

Ionic transport in nano- to sub-nano-scale pores is highly dependent on translocation barriers and potential wells. These features in the free-energy landscape are primarily the result of ion dehydration and electrostatic interactions. For pores in atomically thin membranes, such as graphene, other factors come into play. Ion dynamics both inside and outside the geometric volume of the pore can be critical in determining the transport properties of the channel due to several commensurate length scales, such as the effective membrane thickness, radii of the first and the second hydration layers, pore radius, and Debye length. In particular, for biomimetic pores, such as the graphene crown ether we examine here, there are regimes where transport is highly sensitive to the pore size due to the interplay of dehydration and interaction with pore charge. Picometer changes in the size, e.g., due to a minute strain, can lead to a large change in conductance. Outside of these regimes, the small pore size itself gives a large resistance, even when electrostatic factors and dehydration compensate each other to give a relatively flat -- e.g., near barrierless -- free energy landscape. The permeability, though, can still be large and ions will translocate rapidly after they arrive within the capture radius of the pore. This, in turn, leads to diffusion and drift effects dominating the conductance. The current thus plateaus and becomes effectively independent of pore-free energy characteristics. Measurement of this effect will give an estimate of the magnitude of kinetically limiting features, and experimentally constrain the local electromechanical conditions.

cond-mat.mes-hall↗

arXiv2019

Colloquium: Ionic phenomena in nanoscale pores through 2D materials

Ion transport through nanopores permeates through many areas of science and technology, from cell behavior to sensing and separation to catalysis and batteries. Two-dimensional materials, such as graphene, molybdenum disulfide (MoS$_2$), and hexagonal boron nitride (hBN), are recent additions to these fields. Low-dimensional materials present new opportunities to develop filtration, sensing, and power technologies, encompassing ion exclusion membranes, DNA sequencing, single molecule detection, osmotic power generation, and beyond. Moreover, the physics of ionic transport through pores and constrictions within these materials is a distinct realm of competing many-particle interactions (e.g., solvation/dehydration, electrostatic blockade, hydrogen bond dynamics) and confinement. This opens up alternative routes to creating biomimetic pores and may even give analogues of quantum phenomena, such as quantized conductance, in the classical domain. These prospects make membranes of 2D materials -- i.e., 2D membranes -- fascinating. We will discuss the physics and applications of ionic transport through nanopores in 2D membranes.opores in 2D membranes.

cond-mat.mes-hall↗

arXiv2019

Optimal transport and colossal ionic mechano-conductance in graphene crown ethers

Biological ion channels balance electrostatic and dehydration effects to yield large ion selectivities alongside high transport rates. These macromolecular systems are often interrogated through point mutations of their pore domain, limiting the scope of mechanistic studies. In contrast, we demonstrate that graphene crown ether pores afford a simple platform to directly investigate optimal ion transport conditions, i.e., maximum current densities and selectivity. Crown ethers are known for selective ion adsorption. When embedded in graphene, however, transport rates lie below the drift-diffusion limit. We show that small pore strains -- 1 % -- give rise to a colossal -- 100 % -- change in conductance. This process is electromechanically tunable, with optimal transport in a primarily diffusive regime, tending toward barrierless transport, as opposed to a knock-on mechanism. Measurements of mechanical current modulation will yield direct information on the local electrostatic conditions of the pore. These observations suggest a novel setup for nanofluidic devices while giving insight into the physical foundation of evolutionarily--optimized ion transport in biological pores.

cond-mat.mes-hall↗

arXiv2018

Golden aspect ratio for ion transport simulation in nanopores

Access resistance indicates how well current carriers from a bulk medium can converge to a pore or opening, and is an important concept in nanofluidic devices and in cell physiology. In simplified scenarios, when the bulk dimensions are infinite in all directions, it depends only on the resistivity and pore radius. These conditions are not valid in all-atom molecular dynamics (MD) simulations of transport, due to the computational cost of large simulation cells, and can even break down in micro- and nano-scale systems due to strong confinement. Here, we examine a scaling theory for the access resistance that predicts a special simulation cell aspect ratio -- the golden aspect ratio -- where finite size effects are eliminated. Using both continuum and all-atom simulations, we demonstrate that this golden aspect ratio exists and that it takes on a universal value in linear response and moderate concentrations. Outside of linear response, it gains an apparent dependence on characteristics of the transport scenario (concentration, voltages, etc.) for small simulation cells, but this dependence vanishes at larger length scales. These results will enable the use of all-atom molecular dynamics simulations to study contextual properties of access resistance -- its dependence on protein and molecular-scale fluctuations, the presence of charges, and other functional groups -- and yield the opportunity to quantitatively compare computed and measured resistances.

cond-mat.mes-hall↗

arXiv2018

Maxwell-Hall access resistance in graphene nanopores

The resistance due to the convergence from bulk to a constriction, for example, a nanopore, is a mainstay of transport phenomena. In classical electrical conduction, Maxwell, and later Hall for ionic conduction, predicted this access or convergence resistance to be independent of the bulk dimensions and inversely dependent on the pore radius, $a$, for a perfectly circular pore. More generally, though, this resistance is contextual, it depends on the presence of functional groups/charges and fluctuations, as well as the (effective) constriction geometry/dimensions. Addressing the context generically requires all-atom simulations, but this demands enormous resources due to the algebraically decaying nature of convergence. We develop a finite-size scaling analysis, reminiscent of the treatment of critical phenomena, that makes the convergence resistance accessible in such simulations. This analysis suggests that there is a "golden aspect ratio" for the simulation cell that yields the infinite system result with a finite system. We employ this approach to resolve the experimental and theoretical discrepancies in the radius-dependence of graphene nanopore resistance.

cond-mat.mes-hall↗

arXiv2017

Ionic selectivity and filtration from fragmented dehydration in multilayer graphene nanopores

Selective ion transport is a hallmark of biological ion channel behavior but is a major challenge to engineer into artificial membranes. Here, we demonstrate, with all-atom molecular dynamics simulations, that bare graphene nanopores yield measurable ion selectivity that varies over one to two orders of magnitude simply by changing the pore radius and number of graphene layers. Monolayer graphene does not display dehydration-induced selectivity until the pore radius is small enough to exclude the first hydration layer from inside the pore. Bi- and tri-layer graphene, though, display such selectivity already for a pore size that barely encroaches on the first hydration layer, which is due to the more significant water loss from the second hydration layer. Measurement of selectivity and activation barriers from both first and second hydration layer barriers will help elucidate the behavior of biological ion channels. Moreover, the energy barriers responsible for selectivity -- while small on the scale of hydration energies -- are already relatively large, i.e., many $k_B$. For separation of ions from water, therefore, one can exchange longer, larger radius pores for shorter, smaller radius pores, giving a practical method for maintaining exclusion efficiency while enhancing other properties (e.g., water throughput).

cond-mat.mes-hall↗

arXiv2017

Dehydration as a Universal Mechanism for Ion Selectivity in Graphene and Other Atomically Thin Pores

Ion channels play a key role in regulating cell behavior and in electrical signaling. In these settings, polar and charged functional groups -- as well as protein response -- compensate for dehydration in an ion-dependent way, giving rise to the ion selective transport critical to the operation of cells. Dehydration, though, yields ion-dependent free-energy barriers and thus is predicted to give rise to selectivity by itself. However, these barriers are typically so large that they will suppress the ion currents to undetectable levels. Here, we establish that graphene displays a measurable dehydration-only mechanism for selectivity of $\mathrm{K}^+$ over $\mathrm{Cl}^-$. This fundamental mechanism -- one that depends only on the geometry and hydration -- is the starting point for selectivity for all channels and pores. Moreover, while we study selectivity of $\mathrm{K}^+$ over $\mathrm{Cl}^-$, we find that dehydration-based selectivity functions for all ions, i.e., cation over cation selectivity (e.g., $\mathrm{K}^+$ over $\mathrm{Na}^+$). Its likely detection in graphene pores resolves conflicting experimental results, as well as presents a new paradigm for characterizing the operation of ion channels and engineering molecular/ionic selectivity in filtration and other applications.

cond-mat.mes-hall↗

arXiv2016

Enabling photoemission electron microscopy in liquids via graphene-capped microchannel arrays

Photoelectron emission microscopy PEEM is a powerful tool to spectroscopically image dynamic surface processes at the nanoscale but is traditionally limited to ultra high or moderate vacuum conditions. Here, we develop a novel grapheme capped multichannel array sample platform that extends the capabilities of photoelectron spectromicroscopy to routine liquid and atmospheric pressure studies with standard PEEM setups. Using this platform, we show that graphene has only a minor influence on the electronic structure of water in the first few layers and thus will allow for the examination of minimally perturbed aqueous phase interfacial dynamics. Analogous to microarray screening technology in biomedical research, our platform is highly suitable for applications in tandem with large-scale data mining, pattern recognition, and combinatorial methods for spectro temporal and spatiotemporal analyses at solid liquid interfaces. Using Bayesian linear unmixing algorithm, we were able to discriminate between different X-ray induced water radiolysis scenarios and observe a metastable wetting intermediate water layer during the late stages of bubble formationformation

cond-mat.mtrl-sci↗

arXiv2015

Crossover behavior of the thermal conductance and Kramers' transition rate theory

Kramers' theory frames chemical reaction rates in solution as reactants overcoming a barrier in the presence of friction and noise. For weak coupling to the solution, the reaction rate is limited by the rate at which the solution can restore equilibrium after a subset of reactants have surmounted the barrier to become products. For strong coupling, there are always sufficiently energetic reactants. However, the solution returns many of the intermediate states back to the reactants before the product fully forms. Here, we demonstrate that the thermal conductance displays an analogous physical response to the friction and noise that drive the heat current through a material or structure. A crossover behavior emerges where the thermal reservoirs dominate the conductance at the extremes and only in the intermediate region are the intrinsic properties of the lattice manifest. Not only does this shed new light on Kramers' classic turnover problem, this result is significant for the design of devices for thermal management and other applications, as well as the proper simulation of transport at the nanoscale.

cond-mat.stat-mech↗