Fabrication and practical applications of molybdenum disulfide nanopores

Nanopores for DNA and biomolecule analysis: Diagnostic, genomic insights, applications in energy conversion and catalysis

Recently, nanopores have emerged as highly significant structures with broad applications in diverse scientific and technological fields. They can naturally occur in biological membranes or be artificially fabricated using advanced techniques. Recent advances in nanopore technology have revolutionized genomics by offering previously unheard-of capacities for deoxyribo nucleic acid (DNA) sequencing and analysis. These tiny pores allow individual molecules to be found more easily, allowing for real-time DNA analysis and providing currently unheard-of insights into genetics and diagnostics. By tracking alterations in electrical or ionic currents as biomolecules traverse the pore, nanopores make possible the real-time recognition of other biomolecules, like proteins, nucleic acids, and small molecules, eliminating the need for labeling. This label-free detection potential holds a huge promise in medical diagnostics, genotyping, environmental monitoring, etc. Nanopores have significantly improved DNA sequencing technology such as increment in read length, enabling researchers to sequence entire genomic regions, accuracy can be improved and recent updates have led to a reported increase in total DNA reads, demonstrating the technology's capacity for high-throughput applications via trapping individual DNA strands and monitoring the variations of ionic current as each nucleotide passes across the pore. Finally, nanopore sequencing is well-known as a novel and highly flexible technique for DNA analyses, which has a huge deal of promise in clinical diagnosis and genomics research. Hence, this review article comprehensively explains nanopores for DNA analysis and other biomolecules, their synthesis, and diverse applications.

Synthesis of Nanographene-DNA Conjugates and Their Profiling with MoS2 Nanopores

We demonstrate the possibility of covalently bonded hybrid DNA-graphene materials by synthesizing a model DNA-polycyclic aromatic hydrocarbon (PAH) conjugate comprising a 33mer oligonucleotide containing thymine and uridine modified with bispyrenyl benzene. This DNA-PAH conjugate (T13UPAHT19; T = thymine, UPAH = PAH-modified uridine) has an atomically thin nanographene protrusion extending by only about 1 nm from the single-stranded DNA (ssDNA). We show that DNA-PAH conjugates can be characterized with high resolution by profiling with a nanopore in a monolayer MoS2 membrane. The profiling experiments provided sufficient resolution to distinguish the thymine and PAH-modified regions of T13UPAHT19 and confirm the asymmetry of the PAH attachment relative to the 3' and 5' ends of the ssDNA due to different lengths of the T13 and T19 segments. This work provides the foundation for further exploration of DNA-graphene hybrids, demonstrating an example of their synthesis and the utility of nanopore profiling for their structural characterization with an ∼1 nm resolution.

Nanofluidic Memristive Transition and Synaptic Emulation in Atomically Thin Pores

Ionic transport across nanochannels is the basis of communications in living organisms, enlightening neuromorphic nanofluidic iontronics. Comparing to the angstrom-scale long biological ionic pathways, it remains a great challenge to achieve nanofluidic memristors at such thinnest limit due to the ambiguous electrical model and interaction process. Here, we report atomically thin memristive nanopores in two-dimensional materials by designing optimized ionic conductance to decouple the memristive, ohmic, and capacitive effects. By conducting different charged iontronics, we realize the reconfigurable memristive transition between nonvolatile-bipolar and volatile-unipolar characteristics, which arises from distinct transport processes governed by energy barriers. Notably, we emulate synaptic functions with ultralow energy consumption of ∼0.546 pJ per spike and reproduce biological learning behaviors. The memristive nanopores are similar to the biosystems in angstrom structure, rich iontronic responses, and millisecond-level operating pulse width, matching the biological potential width. This work provides a new paradigm for boosting brain-inspired nanofluidic devices.

Graphene or MoS2 nanopores: pore adhesion and protein linearization

Nanopores drilled in materials can electrophoretically drive charged biomolecules to enable their detection. Here, we explore and compare two-dimensional nanopores, graphene and MoS2, in order to unravel their advantages and disadvantages with regard to protein detection. We tuned the protein translocation and its dynamics by the choice and concentration of the surrounding solvent. For this, we used a typical monovalent salt solution, as well as a molecular solution. We assessed, with the aid of atomistic simulations, the efficiency of both nanopores in threading the protein on the basis of measurable ionic current signals. In the case of graphene, the protein adheres on the graphene surface, hindering the translocation under physiological conditions. This stickiness is resolved with the addition of a denaturant by the formation of a hydrophilic cationic layer on the pore surface and the protein can thread the pore in a linearized configuration. On the other hand, the MoS2 nanopores can thread the protein also in a physiological solution, leading to longer passage times, while the degree of protein linearization is lower than in the case of graphene in a molecular solution. We analyze the differences between the two nanopore materials on the basis of the complex molecular interactions between all components, the material, the target protein, and the solvent. We discuss the relevance of the results with respect to controlling the protein dynamics and enhancing the read-out ionic signals in view of an efficient detection of proteins through 2D nanopores.

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.

Bioinspired solid-state nanochannels for molecular analysis

The acute sensory behaviour in living organisms relies on the highly efficient transport behaviour of ions in biological nanochannels, which has inspired the design and applications of artificial solid-state nanochannels in the field of sensitive analysis. The application of nanochannels for analysis is now widely investigated, and a variety of sensors have been developed. By coupling reliable nanochannel fabrication techniques with a multitude of surface modification strategies, novel sensors with customized sensing capabilities are generated by the integration of recognition elements and nanochannels. The altered physicochemical properties of these solid-state nanochannel sensors will be manifested by steady-state currents when they are affected by the target analyte. In this mini-review, we focus on emerging solid-state nanochannels based on different fabrication processes such as electron-beam etching, anodic oxidation, ion track etching, and self-assembly. Also, modifications of recognition elements are discussed, including nucleic acids, proteins, small molecules, and responsive materials. The key factors of ion transport behaviour during detection are also reviewed, including surface charge, channel size, and wettability. The applications of these bioinspired nanochannels in the exploration of analysis of small molecules (gas molecules, drug molecules and biological molecules) are concisely presented. Furthermore, we discuss the future developments and challenges.

Engineering grain boundaries in monolayer molybdenum disulfide for efficient water-ion separation

Two-dimensional (2D) materials have long been considered as ideal platforms for developing separation membranes. However, it is difficult to generate uniform subnanometer pores over large areas on 2D materials. We report that the well-defined eight-membered ring (8-MR) pores, typically formed at the boundaries of two antiparallel grains of monolayer molybdenum disulfide (MoS2), can serve as molecular sieves for efficient water-ion separation. The density of grain boundaries and, consequently, the number of 8-MR pores can be tuned by regulating the grain size. Optimized MoS2 membranes outperformed the state-of-the-art membranes in forward osmosis tests by demonstrating both ultrahigh water/sodium chloride selectivity and exceptional water permeance. Creating precise pore structures on atomically thin films through grain boundary engineering presents a promising route for producing membranes suitable for various applications.

2D Materials for Potable Water Application: Basic Nanoarchitectonics and Recent Progresses

Water polluted by toxic chemicals due to waste from chemical/pharmaceuticals and harmful microbes such as E. Coli bacteria causes several fatal diseases; and therefore, water filtration is crucial for accessing clean and safe water necessary for good health. Conventional water filtration technologies include activated carbon filters, reverse osmosis, and ultrafiltration. However, they face several challenges, including high energy consumption, fouling, limited selectivity, inefficiencies in removing certain contaminants, dimensional control of pores, and structural/chemical changes at higher thermal conditions and upon prolonged usage of water filter. Recently, the advent of 2D materials such as graphene, BN, MoS2, MXenes, and so on opens new avenues for advanced water filtration systems. This review delves into the nanoarchitectonics of 2D materials for water filtration applications. The current state of water filtration technologies is explored, the inherent challenges they face are outlines, and the unique properties and advantages of 2D materials are highlighted. Furthermore, the scope of this review is discussed, which encompasses the synthesis, characterization, and application of various 2D materials in water filtration, providing insights into future research directions and potential industrial applications.

Tuning the Sensitivity of MoS2 Nanopores: From Labeling to Labeling-Free Detection of DNA Methylation

DNA methylation discrimination is often challenged by complicated pretreatment, insufficient sensitivity, and suboptimal accuracy. Here, single-molecule readout of DNA methylation is reported using single-layer MoS2 nanopores. By tuning pore dimension, the sensitivity of MoS2 nanopores is manipulated, empowering both labeling and labeling-free strategies for DNA methylation discrimination. With methyl-CpG-binding domain protein 1 (MBD1)-labeled methylated DNA translocation in customized nanopores, multiple methylated sites with distance as short as 70 bp in double strand DNA can be resolved. To further improve spatial resolution, small MoS2 nanopores are engineered with single-nucleotide sensitivity, realizing labeling-free methylation detection with single-nucleotide resolution to recognize two nucleotides with only one methyl difference. This study demonstrates the availability of engineered MoS2 nanopores in DNA methylation detection, underscoring their potential for epigenetic alteration research at the single-molecule level.

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.

Light-Driven Ionic and Molecular Transport through Atomically Thin Single Nanopores in MoS2/WS2 Heterobilayers

Nanofluidic ionic and molecular transport through atomically thin nanopore membranes attracts broad research interest from both scientific and industrial communities for environmental, healthcare, and energy-related technologies. To mimic the biological ion pumping functions, recently, light-induced and quantum effect-facilitated charge separation in heterogeneous 2D-material assemblies is proposed as the fourth type of driving force to achieve active and noninvasive transport of ionic species through synthetic membrane materials. However, to date, engineering versatile van der Waals heterostructures into 2D nanopore membranes remains largely unexplored. Herein, we fabricate single nanopores in heterobilayer transition metal dichalcogenide membranes with helium ion beam irradiation and demonstrate the light-driven ionic transport and molecular translocation phenomena through the atomically thin nanopores. Experimental and simulation results further elucidate the driving mechanism as the photoinduced near-pore electric potential difference due to type II band alignment of the semiconducting WS2 and MoS2 monolayers. The strength of the photoinduced localized electric field near the pore region can be approximately 1.5 times stronger than that of its counterpart under the conventional voltage-driven mode. Consequently, the light-driven mode offers better spatial resolution for single-molecule detection. Light-driven ionic and molecular transport through nanopores in van der Waals heterojunction membranes anticipates transformative working principles for next-generation biomolecular sequencing and gives rise to fascinating opportunities for light-to-chemical energy harvesting nanosystems.

Asymmetric ion transport through "Janus" MoSSe sub-nanometer pores

We conduct all-atom molecular dynamics simulations to systematically investigate the underlying mechanisms governing ion transport through a sub-nanometer pore decorated with negative charges in a "Janus" MoSSe membrane. The charge imbalance between S and Se atoms on each side of the membrane induces different types of ion adsorption processes depending on the pore inner charge configuration, and the polarity of external biases, which leads to asymmetry in ionic I-V characteristics. Statistical analysis of the total translocation times including adsorption-desorption processes, and ion dwell times indicates that potassium ions predominantly remain adsorbed during their interaction with the membrane before undertaking a quick translocation through the pore. High applied biases suppress cation adsorption, which results in fast translocation with the current flow boosted by negative inner charges around the pore. We also show that in a membrane consisting of several "Janus" layers, the applied bias necessary to overcome the sub-nm pore barrier increases with the number of layers, providing control over the ionic current.

Single-Digit Nanobubble Sensing via Nanopore Technology

Nanobubbles play an important role in diverse fields, including engineering, medicine, and agriculture. Understanding the characteristics of individual nanobubbles is essential for comprehending fluid dynamics behaviors and advancing nanoscale science across various fields. Here, we report a strategy based on nanopore sensors for characterizing single-digit nanobubbles. We investigated the sizes and diffusion coefficients of nanobubbles at different voltages. Additionally, the finite element simulation and molecular dynamics simulation were introduced to account for counterion concentration variation around nanobubbles in the nanopore. In particular, the differences in stability and surface charge density of nanobubbles under various solution environments have been studied by the ion-stabilized model and the DLVO theory. Additionally, a straightforward method to mitigate nanobubble generation in the bulk for reducing current noise in nanopore sensing was suggested. The results hold significant implications for enhancing the understanding of individual nanobubble characterizations, especially in the nanofluid field.

Degree of disorder-regulated ion transport through amorphous monolayer carbon

Nanopore technology, re-fueled by two-dimensional (2D) materials such as graphene and MoS2, controls mass transport by allowing certain species while denying others at the nanoscale and has a wide application range in DNA sequencing, nano-power generation, and others. With their low transmembrane transport resistance and high permeability stemming from their ultrathin nature, crystalline 2D materials do not possess nanoscale holes naturally, thus requiring additional fabrication to create nanopores. Herein, we demonstrate that nanopores exist in amorphous monolayer carbon (AMC) grown at low temperatures. The size and density of nanopores can be tuned by the growth temperature, which was experimentally verified by atomic images and further corroborated by kinetic Monte Carlo simulation. Furthermore, AMC films with varied degrees of disorder (DOD) exhibit tunable transmembrane ionic conductance over two orders of magnitude when serving as nanopore membranes. This work demonstrates the DOD-tuned property in amorphous monolayer carbon and provides a new candidate for modern membrane science and technology.

Bioinspired 2D nanofluidic membranes for energy applications

Bioinspired two-dimensional (2D) nanofluidic membranes have been explored for the creation of high-performance ion transport systems that can mimic the delicate transport functions of living organisms. Advanced energy devices made from these membranes show excellent energy storage and conversion capabilities. Further research and development in this area are essential to unlock the full potential of energy devices and facilitate the development of high-performance equipment toward real-world applications and a sustainable future. However, there has been minimal review and summarization of 2D nanofluidic membranes in recent years. Thus, it is necessary to carry out an extensive review to provide a survey library for researchers in related fields. In this review, the classification and the raw materials that are used to construct 2D nanofluidic membranes are first presented. Second, the top-down and bottom-up methods for constructing 2D membranes are introduced. Next, the applications of bioinspired 2D membranes in osmotic energy, hydraulic energy, mechanical energy, photoelectric conversion, lithium batteries, and flow batteries are discussed in detail. Finally, the opportunities and challenges that 2D nanofluidic membranes are likely to face in the future are envisioned. This review aims to provide a broad knowledge base for constructing high-performance bioinspired 2D nanofluidic membranes for advanced energy applications.

Label-Free Imaging of DNA Interactions with 2D Materials

Two-dimensional (2D) materials offer potential as substrates for biosensing devices, as their properties can be engineered to tune interactions between the surface and biomolecules. Yet, not many methods can measure these interactions in a liquid environment without introducing labeling agents such as fluorophores. In this work, we harness interferometric scattering (iSCAT) microscopy, a label-free imaging technique, to investigate the interactions of single molecules of long dsDNA with 2D materials. The millisecond temporal resolution of iSCAT allows us to capture the transient interactions and to observe the dynamics of unlabeled DNA binding to a hexagonal boron nitride (hBN) surface in solution for extended periods (including a fraction of 10%, of trajectories lasting longer than 110 ms). Using a focused ion beam technique to engineer defects, we find that DNA binding affinity is enhanced at defects; when exposed to long lanes, DNA binds preferentially at the lane edges. Overall, we demonstrate that iSCAT imaging is a useful tool to study how biomolecules interact with 2D materials, a key component in engineering future biosensors.

Surface-dominant micro/nanofluidics for efficient green energy conversion

Green energy conversion in aqueous systems has attracted considerable interest owing to the sustainable clean energy demand resulting from population and economic growth and urbanization, as well as the significant potential energy from water resources and other regenerative sources coupled with fluids. In particular, molecular motion based on intrinsic micro/nanofluidic phenomena at the liquid-solid interface (LSI) is crucial for efficient and sustainable green energy conversion. The electrical double layer is the main factor affecting transport, interaction between molecules and surfaces, non-uniform ion distribution, synthesis, stimulated reactions, and motion by external renewable resources in both closed nanoconfinement and open surfaces. In this review, we summarize the state-of-the-art progress in physical and chemical reaction-based green energy conversion in LSI, including nanoscale fabrication, key mechanisms, applications, and limitations for practical implementation. The prospects for resolving critical challenges in this field and inspiring other promising research areas in the infancy stage (studying chemical and biological dynamics at the single-molecule level and nanofluidic neuromorphic computing) are also discussed.

Fabrication of angstrom-scale two-dimensional channels for mass transport

Fluidic channels at atomic scales regulate cellular trafficking and molecular filtration across membranes, and thus play crucial roles in the functioning of living systems. However, constructing synthetic channels experimentally at these scales has been a significant challenge due to the limitations in nanofabrication techniques and the surface roughness of the commonly used materials. Angstrom (Å)-scale slit-like channels overcome such challenges as these are made with precise control over their dimensions and can be used to study the fluidic properties of gases, ions and water at unprecedented scales. Here we provide a detailed fabrication method of the two-dimensional Å-scale channel devices that can be assembled to contain a desired number of channels, a single channel or up to hundreds of channels, made with atomic-scale precision using layered crystals. The procedure includes the fabrication of the substrate, flake, spacer layer, flake transfers, van der Waals assembly and postprocessing. We further explain how to perform molecular transport measurements with the Å-channels to directly probe the intriguing and anomalous phenomena that help shed light on the physics governing ultra-confined transport. The procedure requires a total of 1-2 weeks for the fabrication of the two-dimensional channel device and is suitable for users with prior experience in clean room working environments and nanofabrication.

p-Type Two-Dimensional Semiconductors: From Materials Preparation to Electronic Applications

Two-dimensional (2D) materials are regarded as promising candidates in many applications, including electronics and optoelectronics, because of their superior properties, including atomic-level thickness, tunable bandgaps, large specific surface area, and high carrier mobility. In order to bring 2D materials from the laboratory to industrialized applications, materials preparation is the first prerequisite. Compared to the n-type analogs, the family of p-type 2D semiconductors is relatively small, which limits the broad integration of 2D semiconductors in practical applications such as complementary logic circuits. So far, many efforts have been made in the preparation of p-type 2D semiconductors. In this review, we overview recent progresses achieved in the preparation of p-type 2D semiconductors and highlight some promising methods to realize their controllable preparation by following both the top-down and bottom-up strategies. Then, we summarize some significant application of p-type 2D semiconductors in electronic and optoelectronic devices and their superiorities. In end, we conclude the challenges existed in this field and propose the potential opportunities in aspects from the discovery of novel p-type 2D semiconductors, their controlled mass preparation, compatible engineering with silicon production line, high-κ dielectric materials, to integration and applications of p-type 2D semiconductors and their heterostructures in electronic and optoelectronic devices. Overall, we believe that this review will guide the design of preparation systems to fulfill the controllable growth of p-type 2D semiconductors with high quality and thus lay the foundations for their potential application in electronics and optoelectronics.

Engineering Biological Nanopore Approaches toward Protein Sequencing

Biotechnological innovations have vastly improved the capacity to perform large-scale protein studies, while the methods we have for identifying and quantifying individual proteins are still inadequate to perform protein sequencing at the single-molecule level. Nanopore-inspired systems devoted to understanding how single molecules behave have been extensively developed for applications in genome sequencing. These nanopore systems are emerging as prominent tools for protein identification, detection, and analysis, suggesting realistic prospects for novel protein sequencing. This review summarizes recent advances in biological nanopore sensors toward protein sequencing, from the identification of individual amino acids to the controlled translocation of peptides and proteins, with attention focused on device and algorithm development and the delineation of molecular mechanisms with the aid of simulations. Specifically, the review aims to offer recommendations for the advancement of nanopore-based protein sequencing from an engineering perspective, highlighting the need for collaborative efforts across multiple disciplines. These efforts should include chemical conjugation, protein engineering, molecular simulation, machine-learning-assisted identification, and electronic device fabrication to enable practical implementation in real-world scenarios.

Adsorption of DNA nucleobases on single-layer Ti3C2 MXene and graphene: vdW-corrected DFT and NEGF studies

We investigated the interaction of DNA nucleobases [adenine (A), guanine (G), thymine (T), and cytosine (C)] with single-layer Ti3C2 MXene using Van der Waals (vdW)-corrected density functional theory and non-equilibrium Green's function methods. All calculations were benchmarked against graphene. We showed that depending on the initial vertical height of a nucleobase above the Ti3C2 surface, two interaction mechanisms are possible, namely, physisorption and chemisorption. For graphene, DNA nucleobases always physisorbed onto the graphene surface irrespective of the initial vertical height of the nucleobase above the graphene sheet. The PBE+vdW binding energies for graphene are high (0.55-0.74 eV) and follow the order G > A > T > C, with adsorption heights in the range of 3.16-3.22 Å, indicating strong physisorption. For Ti3C2, the PBE+vdW binding energies are relatively weaker (0.16-0.20 eV) and follow the order A > G = T > C, with adsorption heights in the range of 5.51-5.60 Å, indicating weak physisorption. The binding energies for chemisorption follow the order G > A > T > C, which is the same order for physisorption. The binding energy values (5.3-7.5 eV) indicate very strong chemisorption (∼40 times larger than the physisorption binding energies). Furthermore, our band structure and electronic transport analysis showed that for physisorption, there is neither significant variation in the band structure nor modulation in the transmission function and device density of states. The relatively weak physisorption and strong chemisorption show that Ti3C2 might not be capable of identifying DNA nucleobases using the physisorption method.

MoS2 nanopore identifies single amino acids with sub-1 Dalton resolution

The sequencing of single protein molecules using nanopores is faced with a huge challenge due to the lack of resolution needed to resolve single amino acids. Here we report the direct experimental identification of single amino acids in nanopores. With atomically engineered regions of sensitivity comparable to the size of single amino acids, MoS₂ nanopores provide a sub-1 Dalton resolution for discriminating the chemical group difference of single amino acids, including recognizing the amino acid isomers. This ultra-confined nanopore system is further used to detect the phosphorylation of individual amino acids, demonstrating its capability for reading post-translational modifications. Our study suggests that a sub-nanometer engineered pore has the potential to be applied in future chemical recognition and de novo protein sequencing at the single-molecule level.

Discriminating Single Nucleotide Variations in Solid-State Nanopores by Evaluating the Combination Efficiency between DNA Polymerase and Its Substrate

A single nucleotide variant present between two otherwise identical nucleic acids will have unexpected functional consequences frequently. Here, a neoteric single nucleotide variation (SNV) detection assay that integrates two complementary nanotechnology systems, nanoassembly technology and an ingenious nanopore biosensing platform, has been applied to this research. Specifically, we set up a detection system to reflect the binding efficiency of the polymerase and nanoprobe through the difference of nanopore signals and then explore the effect of base mutation at the binding site. In addition, machine learning based on support vector machines is used to automatically classify characteristic events mapped by nanopore signals. Our system reliably discriminates single nucleotide variants at binding sites, even possessing the recognition among transitions, transversions, and hypoxanthine (base I). Our results demonstrate the potential of solid-state nanopore detection for SNV and provide some ideas for expanding solid-state nanopore detection platforms.

DNA sequencing via molecular dynamics simulation with functionalized graphene nanopore

Through this research, functionalized graphene nanopores are used to verify how effective such an apparatus for DNA sequencing is. The circular symmetric pores are functionalized with hydrogen and a hydroxyl group bonded with carbon atoms of the pore rim. Plus, two adenine bases are also put at the rim perimeter to verify whether such a combination would lead to base detection. A homopolymer of single-stranded DNA (ssDNA) is pulled through a nanopore using steered molecular dynamics (SMD) simulation. Pulling force profile, moving fashion of ssDNA in irreversible DNA pulling as well as the base orientation during translocation relative to the graphene plane, called beta angle, are assessed. Based on the studied parameters, SMD force, and base orientation, the hydrogenated and hydroxylated pores do not show a clear distinction between bases, while the adenine-functionalized pore can distinguish between adenine and cytosine. Therefore, there may be some hope for achieving single-base sequencing, while further research is needed.

Fluids and Electrolytes under Confinement in Single-Digit Nanopores

Confined fluids and electrolyte solutions in nanopores exhibit rich and surprising physics and chemistry that impact the mass transport and energy efficiency in many important natural systems and industrial applications. Existing theories often fail to predict the exotic effects observed in the narrowest of such pores, called single-digit nanopores (SDNs), which have diameters or conduit widths of less than 10 nm, and have only recently become accessible for experimental measurements. What SDNs reveal has been surprising, including a rapidly increasing number of examples such as extraordinarily fast water transport, distorted fluid-phase boundaries, strong ion-correlation and quantum effects, and dielectric anomalies that are not observed in larger pores. Exploiting these effects presents myriad opportunities in both basic and applied research that stand to impact a host of new technologies at the water-energy nexus, from new membranes for precise separations and water purification to new gas permeable materials for water electrolyzers and energy-storage devices. SDNs also present unique opportunities to achieve ultrasensitive and selective chemical sensing at the single-ion and single-molecule limit. In this review article, we summarize the progress on nanofluidics of SDNs, with a focus on the confinement effects that arise in these extremely narrow nanopores. The recent development of precision model systems, transformative experimental tools, and multiscale theories that have played enabling roles in advancing this frontier are reviewed. We also identify new knowledge gaps in our understanding of nanofluidic transport and provide an outlook for the future challenges and opportunities at this rapidly advancing frontier.

Scaled-Up Synthesis of Freestanding Molybdenum Disulfide Membranes for Nanopore Sensing

2D materials are ideal for nanopores with optimal detection sensitivity and resolution. Among these, molybdenum disulfide (MoS₂ ) has gained traction as a less hydrophobic material than graphene. However, experiments using 2D nanopores remain challenging due to the lack of scalable methods for high-quality freestanding membranes. Herein, a site-directed, scaled-up synthesis of MoS₂ membranes on predrilled nanoapertures on 4-inch wafer substrates with 75% yields is reported. Chemical vapor deposition (CVD), which introduces sulfur and molybdenum dioxide vapors across the sub-100 nm nanoapertures results in exclusive formation of freestanding membranes that seal the apertures. Nucleation and growth near the nanoaperture edges is followed by nanoaperture decoration with MoS₂ , which proceeds until a critical flake curvature is achieved, after which fully spanning freestanding membranes form. Intentional blocking of reagent flow through the apertures inhibits MoS₂ nucleation around the nanoapertures, promoting the formation of large-crystal monolayer MoS₂ membranes. The in situ grown membranes along with facile membrane wetting and nanopore formation using dielectric breakdown enables the recording of dsDNA translocation events at an unprecedentedly high 1 MHz bandwidth. The methods presented here are important steps toward the development of scalable single-layer membrane manufacture for 2D nanofluidics and nanopore applications.

High durability and stability of 2D nanofluidic devices for long-term single-molecule sensing

Nanopores in two-dimensional (2D) membranes hold immense potential in single-molecule sensing, osmotic power generation, and information storage. Recent advances in 2D nanopores, especially on single-layer MoS2, focus on the scalable growth and manufacturing of nanopore devices. However, there still remains a bottleneck in controlling the nanopore stability in atomically thin membranes. Here, we evaluate the major factors responsible for the instability of the monolayer MoS2 nanopores. We identify chemical oxidation and delamination of monolayers from their underlying substrates as the major reasons for the instability of MoS2 nanopores. Surface modification of the substrate and reducing the oxygen from the measurement solution improves nanopore stability and dramatically increases their shelf-life. Understanding nanopore growth and stability can provide insights into controlling the pore size, shape and can enable long-term measurements with a high signal-to-noise ratio and engineering durable nanopore devices.

Light-Driven Ion Transport through Single-Heterojunction Nanopores

Inspired by natural photosynthesis, light has become an emerging ionic behavior regulator and ion-pumping source. Nanoprocessing technology has allowed the bridge between the light-regulated nanofluids and the optoelectronic properties of two-dimensional (2D) materials, which inspires applications like energy harvesting and enhances fundamental understandings in nanofluidics. However, unlike light-induced ion pumping based on densely layered membranes with multiple nanochannels, experimental implementation on atomically thin materials featuring only a single nanochannel remains challenging. Here, we report light-induced ion pumping based on a single artificial heterojunction nanopore. Under light illumination, the induced current through a single nanopore reaches tens of picoamperes. The hole-electron separation originating from the optoelectrical property of a van der Waals PN junction is proposed to capture the light-driven ion transport. Further, different methods are adopted to modify the ion behavior and response time, presenting potential applications in fluidic photoenergy harvesting, photoelectric ion transport control, and bionic artificial neurons.

Laser-Assisted Scalable Pore Fabrication in Graphene Membranes for Blue-Energy Generation

The osmotic energy from a salinity gradient (i. e. blue energy) is identified as a promising non-intermittent renewable energy source for a sustainable technology. However, this membrane-based technology is facing major limitations for large-scale viability, primarily due to the poor membrane performance. An atomically thin 2D nanoporous material with high surface charge density resolves the bottleneck and leads to a new class of membrane material the salinity gradient energy. Although 2D nanoporous membranes show extremely high performance in terms of energy generation through the single pore, the fabrication and technical challenges such as ion concentration polarization make the nanoporous membrane a non-viable solution. On the other hand, the mesoporous and micro porous structures in the 2D membrane result in improved energy generation with very low fabrication complexity. In the present work, we report femtosecond (fs) laser-assisted scalable fabrication of μm to mm size pores on Graphene membrane for blue energy generation for the first time. A remarkable osmotic power in the order of μW has been achieved using mm size pores, which is about six orders of magnitudes higher compared to nanoporous membranes, which is mainly due to the diffusion-osmosis driven large ionic flux. Our work paves the way towards fs laser-assisted scalable pore creation in the 2D membrane for large-scale osmotic power generation.

Electrodiffusioosmosis induced negative differential resistance in micro-to-millimeter size pores through a graphene/copper membrane

Negative differential resistance (NDR) is one of the nonlinear transport phenomena in which ionic current decreases with the increase in electromotive potential. Electro-osmosis, diffusio-osmosis, and surface charge density of pores are the driving forces for observing NDR in nanoscale ion transport. Here, we report electrodiffusioosmosis induced NDR using micro to millimeter size pores in a two-dimensional (2D) graphene-coated copper (Gr/Cu) membrane. Along with NDR, we also observed ion current rectification (ICR), in which there is preferential one-directional ion flow for equal and opposite potentials. The experimentally observed NDR effect has been validated by performing ion transport simulations using Poisson-Nernst-Planck (PNP) equations and Navier-Stokes equations with the help of COMSOL Multiphysics considering salinity gradient across the membrane. Charge polarization induced electro-osmotic flow (EOF) dominates over diffusio-osmosis, causing the backflow of low concentration/conductivity solution into the pore, thereby causing NDR. This finding paves the way toward potential applications in ionic tunnel diodes as rectifiers, switches, amplifiers, and biosensors.

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

Large-area nanopore drilling is a major bottleneck in state-of-the-art nanoporous 2D membrane fabrication protocols. In addition, high-quality structural and statistical descriptions of as-fabricated porous membranes are key to predicting the corresponding membrane-wide permeation properties. In this work, we investigate Xe-ion focused ion beam as a tool for scalable, large-area nanopore fabrication on atomically thin, free-standing molybdenum disulfide. The presented irradiation protocol enables designing ultrathin membranes with tunable porosity and pore dimensions, along with spatial uniformity across large-area substrates. Fabricated nanoporous membranes are then characterized using scanning transmission electron microscopy imaging, and the observed nanopore geometries are analyzed through a pore-edge detection and analysis script. We further demonstrate that the obtained structural and statistical data can be readily passed on to computational and analytical tools to predict the permeation properties at both individual pore and membrane-wide scales. As an example, membranes featuring angstrom-scale pores are investigated in terms of their emerging water and ion flow properties through extensive all-atom molecular dynamics simulations. We believe that the combination of experimental and analytical approaches presented here will yield accurate physics-based property estimates and thus potentially enable a true function-by-design approach to fabrication for applications such as osmotic power generation and desalination/filtration.

Nanoscale Pore-Pore Coupling Effect on Ion Transport through Ordered Porous Monolayers

Distinct from the conventional view that nanopores are considered independent channels for mass transport, recent study on the covalent organic framework (COF)-based monolayers characteristic of an ordered nanopore array exhibits a series of interesting properties originating from the strong interactions between adjacent pores. These interactions are determined to be highly dependent on interpore distance and pose a significant influence on the ion transport, accounting for the exceptional membrane performance including both selectivity and conductance. In this Perspective, we discuss the recently discovered nanoscale pore-pore coupling as well as the exciting features of porous nanostructures. We also look at the challenges and future opportunities of ion transport in ordered porous monolayers in the aspects of both fundamental research and practical use.

Ionic Liquid Decelerates Single-Stranded DNA Transport through Molybdenum Disulfide Nanopores

Nanopores in two-dimensional (2D) materials have emerged to offer in principle necessary spatial resolution for high-throughput DNA sequencing. However, their fidelity is severely limited by the fast DNA translocation. A recent experiment indicates that introducing ionic liquids could slow down DNA translocation in a MoS₂ nanopore. However, the corresponding in-depth molecular mechanism underlying the experimental findings is not fully understood, which is crucial for the future improvement of rational DNA translocation control. Here, we computationally investigate and then experimentally identify the effect of BmimCl ionic liquid on the retardation of ssDNA translocation through a single-layer MoS₂ nanopore. Our all-atom molecular dynamics simulations demonstrate that the strong interaction between Bmim⁺ and ssDNA offers a considerable dragging force to decelerate the electrophoretic motion of ssDNA in the BmimCl solution. Moreover, we show that Bmim⁺ ions exhibit preferential binding on the sulfur edges of the nanopore. These Bmim⁺ in the pore region can not only act as a steric blockage but also form π-π stackings with nucleobases, which provide a further restriction on the ssDNA motion. Therefore, our molecular dynamics simulation investigations deepen the understanding of the critical role of ionic liquid in DNA translocation through a nanopore from a molecular landscape, which may benefit practical implementations of ionic liquids in nanopore sequencing.

Localized Nanopore Fabrication via Controlled Breakdown

Nanopore sensors provide a unique platform to detect individual nucleic acids, proteins, and other biomolecules without the need for fluorescent labeling or chemical modifications. Solid-state nanopores offer the potential to integrate nanopore sensing with other technologies such as field-effect transistors (FETs), optics, plasmonics, and microfluidics, thereby attracting attention to the development of commercial instruments for diagnostics and healthcare applications. Stable nanopores with ideal dimensions are particularly critical for nanopore sensors to be integrated into other sensing devices and provide a high signal-to-noise ratio. Nanopore fabrication, although having benefited largely from the development of sophisticated nanofabrication techniques, remains a challenge in terms of cost, time consumption and accessibility. One of the latest developed methods—controlled breakdown (CBD)—has made the nanopore technique broadly accessible, boosting the use of nanopore sensing in both fundamental research and biomedical applications. Many works have been developed to improve the efficiency and robustness of pore formation by CBD. However, nanopores formed by traditional CBD are randomly positioned in the membrane. To expand nanopore sensing to a wider biomedical application, controlling the localization of nanopores formed by CBD is essential. This article reviews the recent strategies to control the location of nanopores formed by CBD. We discuss the fundamental mechanism and the efforts of different approaches to confine the region of nanopore formation.

Advancing osmotic power generation by covalent organic framework monolayer

Osmotic power, also known as 'blue energy', is produced by mixing solutions of different salt concentrations, and represents a vast, sustainable and clean energy source. The efficiency of harvesting osmotic power is primarily determined by the transmembrane performance, which is in turn dependent on ion conductivity and selectivity towards positive or negative ions. Atomically or molecularly thin membranes with a uniform pore environment and high pore density are expected to possess an outstanding ion permeability and selectivity, but remain unexplored. Here we demonstrate that covalent organic framework monolayer membranes that feature a well-ordered pore arrangement can achieve an extremely low membrane resistivity and ultrahigh ion conductivity. When used as osmotic power generators, these membranes produce an unprecedented output power density over 200 W m^-2 on mixing the artificial seawater and river water. This work opens up the application of porous monolayer membranes with an atomically precise structure in osmotic power generation.

Contrast Mechanisms in Secondary Electron e-Beam-Induced Current (SEEBIC) Imaging

Over the last few years, a new mode for imaging in the scanning transmission electron microscope (STEM) has gained attention as it permits the direct visualization of sample conductivity and electrical connectivity. When the electron beam (e-beam) is focused on the sample in the STEM, secondary electrons (SEs) are generated. If the sample is conductive and electrically connected to an amplifier, the SE current can be measured as a function of the e-beam position. This scenario is similar to the better-known scanning electron microscopy-based technique, electron beam-induced current imaging, except that the signal in the STEM is generated by the emission of SEs, hence the name secondary electron e-beam-induced current (SEEBIC), and in this case, the current flows in the opposite direction. Here, we provide a brief review of recent work in this area, examine the various contrast generation mechanisms associated with SEEBIC, and illustrate its use for the characterization of graphene nanoribbon devices.

Local Structure of Sulfur Vacancies on the Basal Plane of Monolayer MoS2

The nature of the S-vacancy is central to controlling the electronic properties of monolayer MoS₂. Understanding the geometric and electronic structures of the S-vacancy on the basal plane of monolayer MoS₂ remains elusive. Here, operando S K-edge X-ray absorption spectroscopy shows the formation of clustered S-vacancies on the basal plane of monolayer MoS₂ under reaction conditions (H₂ atmosphere, 100-600 °C). First-principles calculations predict spectral fingerprints consistent with the experimental results. The Mo K-edge extended X-ray absorption fine structure shows the local structure as coordinatively unsaturated Mo with 4.1 ± 0.4 S atoms as nearest neighbors (above 400 °C in an H₂ atmosphere). Conversely, the 6-fold Mo-Mo coordination in the crystal remains unchanged. Electrochemistry confirms similar active sites for hydrogen evolution. The identity of the S-vacancy defect on the basal plane of monolayer MoS₂ is herein elucidated for applications in optoelectronics and catalysis.

Fabrication of solid-state nanopores

Nanopores are valuable single-molecule sensing tools that have been widely applied to the detection of DNA, RNA, proteins, viruses, glycans, etc. The prominent sensing platform is helping to improve our health-related quality of life and accelerate the rapid realization of precision medicine. Solid-state nanopores have made rapid progress in the past decades due to their flexible size, structure and compatibility with semiconductor fabrication processes. With the development of semiconductor fabrication techniques, materials science and surface chemistry, nanopore preparation and modification technologies have made great breakthroughs. To date, various solid-state nanopore materials, processing technologies, and modification methods are available to us. In the review, we outline the recent advances in nanopores fabrication and analyze the virtues and limitations of various membrane materials and nanopores drilling techniques.

Optimization of Monolayer MoS2 with Prescribed Mechanical Properties

Various technological challenges are essentially material problems in our times. New functional and functional graded nanomaterials are constructed of components with predefined properties. The design of nanostructures with predefined mechanical properties was considered in this paper. This study applies the evolutionary algorithm (EA) to the optimization problem in the design of nanomaterials. The optimal design combined EA with molecular dynamics to identify the size of the void for the prescribed elastic properties in monolayer 2D MoS₂ nanostructures. The numerical results show that the proposed EA and the use of optimization method allowed accurately obtaining nanostructures with predefined mechanical material properties by introducing elliptical voids in the 2D MoS₂ nanosheets.

DNA Coil Dynamics and Hydrodynamic Gating of Pressure-Biased Nanopores

Nanopores are ideally suited for the analysis of long DNA fragments including chromosomal DNA and synthetic DNA with applications in genome sequencing and DNA data storage, respectively. Hydrodynamic fluid flow has been shown to slow down DNA transit time within the pore, however other influences of hydrodynamic forces have yet to be explored. In this report, a broad analysis of pressure-biased nanopores and the impact of hydrodynamics on DNA transit time, capture rate, current blockade depth, and DNA folding are conducted. Using a 10 nm pore, it is shown that hydrodynamic flow inhibits the early stages of linearization of DNA and produces predominately folded events which are initiated by folded DNA (2-strands) entering the pore. Furthermore, utilizing larger pores (30 nm) leads to unique DNA gating behavior in which DNA events can be switched on and off with the application of pressure. A computational model, based on combining electrophoretic drift velocities with fluid velocities, accurately predicts the pore size required to observe DNA gating. Hydrodynamic fluid flow generated by a pressure bias, or potentially more generally by other mechanisms like electroosmotic flow, is shown to have significant effects on DNA sensing and can be useful for DNA sensing technologies.

Nonlinear electrohydrodynamic ion transport in graphene nanopores

Mechanosensitivity is one of the essential functionalities of biological ion channels. Synthesizing an artificial nanofluidic system to mimic such sensations will not only improve our understanding of these fluidic systems but also inspire applications. In contrast to the electrohydrodynamic ion transport in long nanoslits and nanotubes, coupling hydrodynamical and ion transport at the single-atom thickness remains challenging. Here, we report the pressure-modulated ion conduction in graphene nanopores featuring nonlinear electrohydrodynamic coupling. Increase of ionic conductance, ranging from a few percent to 204.5% induced by the pressure—an effect that was not predicted by the classical linear coupling of molecular streaming to voltage-driven ion transport—was observed experimentally. Computational and theoretical studies reveal that the pressure sensitivity of graphene nanopores arises from the transport of capacitively accumulated ions near the graphene surface. Our findings may help understand the electrohydrodynamic ion transport in nanopores and offer a new ion transport controlling methodology.

Stress induced delamination of suspended MoS2 in aqueous environments

Applying hydrostatic pressure with suspended 2D material thin membranes allows probing the effects of lateral strain on the ion and fluid transport through nanopores. We demonstrate how both permanent and temporary delamination of 2D materials can be induced by pressure and potential differences between the membrane, causing a strong mechanosensitive modulation of ion transport. Our methodology is based on in situ measurements of ionic current and streaming modulation as the supporting membrane is indented or bulged with pressure. We demonstrate how indirect measurements of fluid transport through delaminated MoS₂ membranes is achieved through monitoring streaming current and potential. This is combined with TEM images of 2D material membranes before and after aqueous measurements, showing temporary delamination during mechanical or electrical stress. The obtained results allow a better understanding of measurements with supported 2D materials, i.e. avoiding misinterpreting measured data, and could be used to probe how the electrical field and fluid flow at the nanoscale influence the adhesion of supported 2D materials.

Mechanical and electrical stress can lead to the temporary and permanent 2D membrane delamination and consequent strong mechanosensitive modulation of ion transport measured in situ.

DNA sequencing: an overview of solid-state and biological nanopore-based methods

The field of sequencing is a topic of significant interest since its emergence and has become increasingly important over time. Impressive achievements have been obtained in this field, especially in relations to DNA and RNA sequencing. Since the first achievements by Sanger and colleagues in the 1950s, many sequencing techniques have been developed, while others have disappeared. DNA sequencing has undergone three generations of major evolution. Each generation has its own specifications that are mentioned briefly. Among these generations, nanopore sequencing has its own exciting characteristics that have been given more attention here. Among pioneer technologies being used by the third-generation techniques, nanopores, either biological or solid-state, have been experimentally or theoretically extensively studied. All sequencing technologies have their own advantages and disadvantages, so nanopores are not free from this general rule. It is also generally pointed out what research has been done to overcome the obstacles. In this review, biological and solid-state nanopores are elaborated on, and applications of them are also discussed briefly.

Two-dimensional materials as solid-state nanopores for chemical sensing

Solid-state nanopores as a versatile alternative to biological nanopores have grown tremendously over the last two decades. They exhibit unique characteristics including mechanical robustness, thermal and chemical stability, easy modifications and so on. Moreover, the pore size of a solid-state nanopore could be accurately controlled from sub-nanometers to hundreds of nanometers based on the experimental requirements, presenting better adaptability than biological nanopores. Two-dimensional (2D) materials with single layer thicknesses and highly ordered structures have great potential as solid-state nanopores. In this perspective, we introduced three kinds of substrate-supported 2D material solid-state nanopores, including graphene, MoS2 and MOF nanosheets, which exhibited big advantages compared to traditional solid-state nanopores and other biological counterparts. Besides, we suggested the fabrication and modulation of 2D material solid-state nanopores. We also discussed the applications of 2D materials as solid-state nanopores for ion transportation, DNA sequencing and biomolecule detection.

Review and comparison of layer transfer methods for two-dimensional materials for emerging applications

Two-dimensional (2D) materials offer immense potential for scientific breakthroughs and technological innovations. While early demonstrations of 2D material-based electronics, optoelectronics, flextronics, straintronics, twistronics, and biomimetic devices exploited micromechanically-exfoliated single crystal flakes, recent years have witnessed steady progress in large-area growth techniques such as physical vapor deposition (PVD), chemical vapor deposition (CVD), and metal-organic CVD (MOCVD). However, use of high growth temperatures, chemically-active growth precursors and promoters, and the need for epitaxy often limit direct growth of 2D materials on the substrates of interest for commercial applications. This has led to the development of a large number of methods for the layer transfer of 2D materials from the growth substrate to the target application substrate with varying degrees of cleanliness, uniformity, and transfer-related damage. This review aims to catalog and discuss these layer transfer methods. In particular, the processes, advantages, and drawbacks of various transfer methods are discussed, as is their applicability to different technological platforms of interest for 2D material implementation.

Devices for Nanoscale Guiding of DNA through a 2D Nanopore

We fabricate on-chip solid-state nanofluidic-2D nanopore systems that can limit the range of motion for DNA in the sensing region of a nanopore. We do so by creating devices containing one or more silicon nitride pores and silicon nitride pillars supporting a 2D pore that orient DNA within a nanopore device to a restricted geometry, yet allow the free motion of ions to maintain a high signal-to-noise ratio. We discuss two concepts with two and three independent electrical connections and corresponding nanopore chip device architectures to achieve this goal in practice. Here, we describe device fabrication and transmission electron microscope (TEM) images, and provide simulated translocations based on the finite element analysis in 3D to demonstrate its merit. In both methods, there is a main 2D nanopore which we refer to as a "sensing" nanopore (monolayer MoS₂ in this paper). A secondary layer is either an array of guiding pores sharing the same electrode pair as the sensing pore (Method 1) or a single, independently contacted, guiding pore (Method 2). These pores are constructed parallel to the "sensing" pore and serve as "guiding" elements to stretch and feed DNA into the atomically thin sensing pore. We discuss the practical implementation of these concepts with nanofluidic and Si-based technology, including detailed fabrication steps and challenges involved for DNA applications in solution.

From Water Solutions to Ionic Liquids with Solid State Nanopores as a Perspective to Study Transport and Translocation Phenomena

Solid state nanopores are single-molecular devices governed by nanoscale physics with a broad potential for technological applications. However, the control of translocation speed in these systems is still limited. Ionic liquids are molten salts which are commonly used as alternate solvents enabling the regulation of the chemical and physical interactions on solid-liquid interfaces. While their combination can be challenging to the understanding of nanoscopic processes, there has been limited attempts on bringing these two together. While summarizing the state of the art and open questions in these fields, several major advances are presented with a perspective on the next steps in the investigations of ionic-liquid filled nanopores, both from a theoretical and experimental standpoint. By analogy to aqueous solutions, it is argued that ionic liquids and nanopores can be combined to provide new nanofluidic functionalities, as well as to help resolve some of the pertinent problems in understanding transport phenomena in confined ionic liquids and providing better control of the speed of translocating analytes.

Nanopores in two-dimensional materials: accurate fabrication

Two-dimensional (2D) materials such as graphene and molybdenum disulfide have been demonstrated with a wide range of applications in electronic devices, chemical catalysis, single-molecule detection, and energy conversion. In the 2D materials, nanopores can be created, and the 2D nanoporous membranes possess many unique properties such as ultrathin thickness, high surface area, and excellent particle sieving capability, showing extraordinary promise in plenty of applications, such as sea water desalination, gas separation, and DNA sequencing. The performances of these membranes are mainly determined by the nanopore size, structure, and density, which, in turn, rely on the fabrication techniques of the nanopores. This review covers the important progress of nanopore fabrication in 2D materials and comprehensively compares these methods for the features of the introduced nanopores and their formation processes. Future perspectives are discussed on the opportunities and challenges in fabricating high-grade 2D nanopores.

Super-resolved Optical Mapping of Reactive Sulfur-Vacancies in Two-Dimensional Transition Metal Dichalcogenides

Transition metal dichalcogenides (TMDs) represent a class of semiconducting two-dimensional (2D) materials with exciting properties. In particular, defects in 2D-TMDs and their molecular interactions with the environment can crucially affect their physical and chemical properties. However, mapping the spatial distribution and chemical reactivity of defects in liquid remains a challenge. Here, we demonstrate large area mapping of reactive sulfur-deficient defects in 2D-TMDs in aqueous solutions by coupling single-molecule localization microscopy with fluorescence labeling using thiol chemistry. Our method, reminiscent of PAINT strategies, relies on the specific binding of fluorescent probes hosting a thiol group to sulfur vacancies, allowing localization of the defects with an uncertainty down to 15 nm. Tuning the distance between the fluorophore and the docking thiol site allows us to control Föster resonance energy transfer (FRET) process and reveal grain boundaries and line defects due to the local irregular lattice structure. We further characterize the binding kinetics over a large range of pH conditions, evidencing the reversible adsorption of the thiol probes to the defects with a subsequent transitioning to irreversible binding in basic conditions. Our methodology provides a simple and fast alternative for large-scale mapping of nonradiative defects in 2D materials and can be used for in situ and spatially resolved monitoring of the interaction between chemical agents and defects in 2D materials that has general implications for defect engineering in aqueous condition.

In situ solid-state nanopore fabrication

Nanopores in solid-state membranes are promising for a wide range of applications including DNA sequencing, ultra-dilute analyte detection, protein analysis, and polymer data storage. Techniques to fabricate solid-state nanopores have typically been time consuming or lacked the resolution to create pores with diameters down to a few nanometres, as required for the above applications. In recent years, several methods to fabricate nanopores in electrolyte environments have been demonstrated. These in situ methods include controlled breakdown (CBD), electrochemical reactions (ECR), laser etching and laser-assisted controlled breakdown (la-CBD). These techniques are democratising solid-state nanopores by providing the ability to fabricate pores with diameters down to a few nanometres (i.e. comparable to the size of many analytes) in a matter of minutes using relatively simple equipment. Here we review these in situ solid-state nanopore fabrication techniques and highlight the challenges and advantages of each method. Furthermore we compare these techniques by their desired application and provide insights into future research directions for in situ nanopore fabrication methods.