High-Throughput Nanopore Fabrication and Classification Using Xe-Ion Irradiation and Automated Pore-Edge Analysis

Iron(II/III) Alters the Relative Roles of the Microbial Byproduct and Humic Acid during Chromium(VI) Reduction and Fixation by Soil-Dissolved Organic Matter

Though reduction of hexavalent chromium (Cr(VI)) to Cr(III) by dissolved organic matter (DOM) is critical for the remediation of polluted soils, the effects of DOM chemodiversity and underlying mechanisms are not fully elucidated yet. Here, Cr(VI) reduction and immobilization mediated by microbial byproduct (MBP)- and humic acid (HA)-like components in (hot) water-soluble organic matter (WSOM), (H)WSOM, from four soil samples in tropical and subtropical regions of China were investigated. It demonstrates that Cr(VI) reduction capacity decreases in the order WSOM > HWSOM and MBP-enriched DOM > HA-enriched DOM due to the higher contents of low molecular weight saturated compounds and CHO molecules in the former. The presence of Fe(II/III) selectively coprecipitates with high molecular weight components (e.g., tannins, lignin, and CHON-rich compounds) to form ferrihydrite and greatly inhibits Cr(VI) transformation and fixation in MBP-enriched DOM but enhances that in HA-enriched DOM. This is probably owing to the combined effects of (1) the increase of DOM electron-donating capacity and Fe(II) generation during the reactions of HA with Fe(II) and Fe(III), respectively; (2) the enrichment of phenolic and carboxyl groups, aromatic compounds, and carbon defects on ferrihydrite surfaces; and (3) the acceleration of HA decomposition and MBP mineralization by hydroxyl radicals. These findings enhance our understanding of the chemodiversity of soil DOM, the complex interactions between Cr(VI), DOM, and Fe(II/III), and can help design remediation strategies for contaminated environments.

Two-Dimensional Material-Based Nanofluidic Devices and Their Applications

Nanofluidics is an interdisciplinary field of study that bridges hydrodynamics, statistical physics, chemistry, materials science, biology, and other fields to investigate the transport of fluids and ions on the nanometric scale. The progress in this field, however, has been constrained by challenges in fabricating nanofluidic devices suitable for systematic investigations. Recent advances in two-dimensional (2D) materials have revolutionized the development of nanofluids. Their ultrathin structure and photothermoelectric response make it possible to achieve the scale control, friction limitation, and regulatory response, all of which are challenging to achieve with traditional solid materials. In this review, we provide a comprehensive overview of the preparation methods and corresponding structures of three types of 2D material-based nanofluidic devices, including nanopores, nanochannels, and membranes. We highlight their applications and recent advances in exploring physical mechanisms, detecting biomolecules (DNA, protein), developing iontronics devices, improving ion/gas selectivity, and generating osmotic energy. We discuss the challenges facing 2D material-based nanofluidic devices and the prospects for future advancements in this field.

Nanopore-based sensors for DNA sequencing: a review

Nanopore sensors, owing to their distinctive structural properties, can be used to detect biomolecular translocation events. These sensors operate by monitoring variations in electric current amplitude and duration, thereby enabling the calibration and distinction of various biomolecules. As a result, nanopores emerge as a potentially powerful tool in the field of deoxyribonucleic acid (DNA) sequencing. However, the interplay between testing bandwidth and noise often leads to the loss of part of the critical translocation signals, presenting a substantial challenge for the precise measurement of biomolecules. In this context, innovative detection mechanisms have been developed, including optical detection, tunneling current detection, and nanopore field-effect transistor (FET) detection. These novel detection methods are based on but beyond traditional nanopore techniques and each of them has unique advantages. Notably, nanopore FET sensors stand out for their high signal-to-noise ratio (SNR) and high bandwidth measurement capabilities, overcoming the limitations typically associated with traditional solid-state nanopore (SSN) technologies and thus paving the way for new avenues to biomolecule detection. This review begins by elucidating the fundamental detection principles, development history, applications, and fabrication methods for traditional SSNs. It then introduces three novel detection mechanisms, with a particular emphasis on nanopore FET detection. Finally, a comprehensive analysis of the advantages and challenges associated with both SSNs and nanopore FET sensors is performed, and then insights into the future development trajectories for nanopore FET sensors in DNA sequencing are provided. This review has two main purposes: firstly, to provide researchers with a preliminary understanding of advancements in the nanopore field, and secondly, to offer a comprehensive analysis of the fabrication techniques, transverse current detection principles, challenges, and future development trends in the field of nanopore FET sensors. This comprehensive analysis aims to help give researchers in-depth insights into cutting-edge advancements in the field of nanopore FET sensors.

In situ generation of (sub) nanometer pores in MoS2 membranes for ion-selective transport

Ion selective membranes are fundamental components of biological, energy, and computing systems. The fabrication of solid-state ultrathin membranes that can separate ions of similar size and the same charge with both high selectivity and permeance remains a challenge, however. Here, we present a method, utilizing the application of a remote electric field, to fabricate a high-density of (sub)nm pores in situ. This method takes advantage of the grain boundaries in few-layer polycrystalline MoS2 to enable the synthesis of nanoporous membranes with average pore size tunable from <1 to ~4 nm in diameter (with in situ pore expansion resolution of ~0.2 nm2 s-1). These membranes demonstrate selective transport of monovalent ions (K+, Na+ and Li+) as well as divalent ions (Mg2+ and Ca2+), outperforming existing two-dimensional material nanoporous membranes that display similar total permeance. We investigate the mechanism of selectivity using molecular dynamics simulations and unveil that the interactions between cations and the sluggish water confined to the pore, as well as cation-anion interactions, result in the different transport behaviors observed between ions.

Surface Roughness Effects on Confined Nanoscale Transport of Ions and Biomolecules

Biological channels, especially membrane proteins, play a crucial role in metabolism, facilitating the transport of nutrients and other materials across cell membranes in a bio-electrolyte environment. Artificial nanopores are employed to study ion and biomolecule transport behavior inside. While the non-specific interaction between the nanopore surface and transport targets has garnered significant attention, the impact of surface roughness is overlooked. In this study, Nanopores with different levels of inner surface roughness is created by adjusting the FIB (Focus Ion Beam) fabrication parameters. Experiments and molecular dynamics (MD) simulations are employed to demonstrate that greater roughness results from larger FIB beam currents and shorter processing times. Lower roughness increases the capture rate of biomolecules, while greater roughness enhances the normalized blockade current (ΔI/I0). The phenomenon of rougher nanopores are attributed to a barrier-dominated capture mechanism and more likely to induce DNA folding. This transport barrier exists in rough nanopores by utilizing steer molecular dynamics (SMD) simulations to investigate the force profile of a dA10 DNA molecule during translocation is demonstrated. This work illustrates how surface roughness influences the ionic current features and the translocation of biomolecules, paving a new way for tunning the molecule transport in nanopores.

Electro-osmotic Flow Generation via a Sticky Ion Action

Selective transport of ions through nanometer-sized pores is fundamental to cell biology and central to many technological processes such as water desalination and electrical energy storage. Conventional methods for generating ion selectivity include placement of fixed electrical charges at the inner surface of a nanopore through either point mutations in a protein pore or chemical treatment of a solid-state nanopore surface, with each nanopore type requiring a custom approach. Here, we describe a general method for transforming a nanoscale pore into a highly selective, anion-conducting channel capable of generating a giant electro-osmotic effect. Our molecular dynamics simulations and reverse potential measurements show that exposure of a biological nanopore to high concentrations of guanidinium chloride renders the nanopore surface positively charged due to transient binding of guanidinium cations to the protein surface. A comparison of four biological nanopores reveals the relationship between ion selectivity, nanopore shape, composition of the nanopore surface, and electro-osmotic flow. Guanidinium ions are also found to produce anion selectivity and a giant electro-osmotic flow in solid-state nanopores via the same mechanism. Our sticky-ion approach to generate electro-osmotic flow can have numerous applications in controlling molecular transport at the nanoscale and for detection, identification, and sequencing of individual proteins.

Electro-Osmotic Flow Generation via a Sticky Ion Action

Selective transport of ions through nanometer-sized pores is fundamental to cell biology and central to many technological processes such as water desalination and electrical energy storage. Conventional methods for generating ion selectivity include placement of fixed electrical charges at the inner surface of a nanopore through either point mutations in a protein pore or chemical treatment of a solid-state nanopore surface, with each nanopore type requiring a custom approach. Here, we describe a general method for transforming a nanoscale pore into a highly selective, anion-conducting channel capable of generating a giant electro-osmotic effect. Our molecular dynamics simulations and reverse potential measurements show that exposure of a biological nanopore to high concentrations of guanidinium chloride renders the nanopore surface positively charged due to transient binding of guanidinium cations to the protein surface. A comparison of four biological nanopores reveals the relationship between ion selectivity, nanopore shape, composition of the nanopore surface, and electro-osmotic flow. Remarkably, guanidinium ions are also found to produce anion selectivity and a giant electro-osmotic flow in solid-state nanopores via the same mechanism. Our sticky-ion approach to generate electro-osmotic flow can have numerous applications in controlling molecular transport at the nanoscale and for detection, identification, and sequencing of individual proteins.