A Universal Strategy for Aptamer‐Based Nanopore Sensing through Host–Guest Interactions inside α‐Hemolysin

Nanopore emerged as a powerful single‐molecule technique over the past two decades, and has shown applications in the stochastic sensing and biophysical studies of individual molecules. Here, we report a versatile strategy for nanopore sensing by employing the combination of aptamers and host–guest interactions. An aptamer is first hybridized with a DNA probe which is modified with a ferrocene?cucurbit[7]uril complex. The presence of analytes causes the aptamer–probe duplex to unwind and release the DNA probe which can quantitatively produce signature current events when translocated through an α‐hemolysin nanopore. The integrated use of magnetic beads can further lower the detection limit by approximately two to three orders of magnitude. Because aptamers have shown robust binding affinities with a wide variety of target molecules, our proposed strategy should be universally applicable for sensing different types of analytes with nanopore sensors.     

Patterned Paper Sensors Printed with Long‐Chain DNA Aptamers

There is growing interest in developing printable paper sensors to enable rapid testing of analytes for environmental, food safety, and clinical applications. A major challenge is to find suitable bioinks that are amenable to high‐speed printing and remain functional after printing. We report on a simple and effective approach wherein an aqueous ink composed of megadalton‐sized tandem repeating structure‐switching DNA aptamers (concatemeric aptamers) is used to rapidly create patterned paper sensors on filter paper by inkjet printing. These concatemeric aptamer reporters remain immobilized at the point of printing through strong adsorption but retain sufficient segmental mobility to undergo structure switching and fluorescence signaling to provide both qualitative and quantitative detection of small molecules and protein targets. The convenience of inkjet printing allows for the patterning of internally referenced sensors with multiplexed detection, and provides a generic platform for on‐demand printing of sensors even in remote locations.     

Deep Learning-Enhanced Potentiometric Aptasensing with Magneto-Controlled Sensors

Bioelectronic sensors that report charge changes of a biomolecule upon target binding enable direct and sensitive analyte detection but remain a major challenge for potentiometric measurement, mainly due to Debye Length limitations and the need for molecular-level platforms. Here, we report on a magneto-controlled potentiometric method to directly and sensitively measure the target-binding induced charge change of DNA aptamers assembled on magnetic beads using a polymeric membrane potentiometric ion sensor. The potentiometric responses of the negatively charged aptamer, serving as a receptor and reporter, were dynamically controlled and modulated by applying a magnetic field. Based on a potentiometric array, this non-equilibrium measurement technique combined with deep learning algorithms allows for rapidly and reliably classifying and quantifying diverse small molecules using antibiotics as models. This potentiometric strategy opens new modalities for sensing applications.     

Enzymatic cleavage and mass amplification strategy for small molecule detection using aptamer-based fluorescence polarization biosensor

Fluorescence polarization (FP) assays incorporated with fluorophore-labeled aptamers have attracted great interest in recent years. However, detecting small molecules through the use of FP assays still remains a challenge because small-molecule binding only results in negligible changes in the molecular weight of the fluorophore-labeled aptamer. To address this issue, we herein report a fluorescence polarization (FP) aptamer assay that incorporates a novel signal amplification strategy for highly sensitive detection of small molecules. In the absence of adenosine, our model target, free FAM-labeled aptamer can be digested by nuclease, resulting in the release of FAM-labeled nucleotide segments from the dT-biotin/streptavidin complex with weak background signal. However, in the presence of target, the FAM-labeled aptamer–target complex protects the FAM-labeled aptamer from nuclease cleavage, allowing streptavidin to act as a molar mass amplifier. The resulting increase in molecular mass and FP intensity of the aptamer–target complex provides improved sensitivity for concentration measurement. The probe could detect adenosine from 0.5 μM to 1000 μM, with a detection limit of 500 nM, showing that the sensitivity of the probe is superior to aptamer-based FP approaches previously reported for adenosine. Importantly, FP could resist environmental interferences, making it useful for complex biological samples without any tedious sample pretreatments. Our results demonstrate that this dual-amplified, aptamer-based strategy can be used to design fluorescence polarization probes for rapid, sensitive, and selective measurement of small molecules in complicated biological environment.     

Protein detection by nanopores equipped with aptamers

Protein nanopores have been used as stochastic sensors for the detection of analytes that range from small molecules to proteins. In this approach, individual analyte molecules modulate the ionic current flowing through a single nanopore. Here, a new type of stochastic sensor based on an αHL pore modified with an aptamer is described. The aptamer is bound to the pore by hybridization to an oligonucleotide that is attached covalently through a disulfide bond to a single cysteine residue near a mouth of the pore. We show that the binding of thrombin to a 15-mer DNA aptamer, which forms a cation-stabilized quadruplex, alters the ionic current through the pore. The approach allows the quantification of nanomolar concentrations of thrombin, and provides association and dissociation rate constants and equilibrium dissociation constants for thrombin·aptamer interactions. Aptamer-based nanopores have the potential to be integrated into arrays for the parallel detection of multiple analytes.     

Immobilized DNA switches as electronic sensors for picomolar detection of plasma proteins

The sensing principle of a new class of DNA conformational switches (deoxyribosensors) is based on the incorporation of an aptamer as the receptor, whose altered conformation upon analyte binding switches on the conductivity of an adjacent helical conduction path, leading to an increase in the measured electrical signal through the sensor. We report herein the rational design and biochemical testing of candidate deoxyribosensors for the detection and quantitation of a plasma protein, thrombin, followed by surface immobilization of the optimized sensor and its electrochemical testing in both a near-physiological buffer solution and in diluted blood serum. The very high detection sensitivity (in the picomolar range) and specificity, as well as the adaptability of deoxyribosensors for the detection of diverse molecular analytes both small and macromolecular, make this novel sensing methodology an extremely promising one. Such synthetic and robust DNA-based electronic sensors should find broad application in the rapid, miniaturized, and automated on-chip detection of many biomedically relevant substances (such as metabolites, toxins, and disease and tumor markers) as well as of environmental contaminants.     

碳纳米管气体传感器研究进展

碳纳米管具有一维纳米结构、高表面吸附能力、良好的导电性和电子弹道传输特性等优异的力学、电学、物理和化学性能,成为制作纳米气体传感器的理想材料之一.近年来,各国研究者广泛开展了碳纳米管气体传感器的研究工作,并取得了许多显著成果.研究结果表明,碳纳米管气体传感器具有灵敏度高、响应速度快、尺寸小、能耗低和室温下工作等诸多特点.本文结合本研究小组近年来在碳纳米管气体传感器领域所做的大量研究工作,从环境监测、医学检测和国防军事等方面,对碳纳米管气体传感器取得的研究进展进行了综述,同时也阐述和分析了碳纳米管气体传感器的工作原理和制作过程.尽管面临诸多挑战,随着研究的不断深入,碳纳米管气体传感器仍有可能凭借其独特的性能优势成为当前商业应用气体传感器的有力竞争者.     

Acoustic quantification of ATP using a quartz crystal microbalance with dissipation

A quartz crystal microbalance with a dissipation monitoring (QCM-D) sensor was developed for highly sensitive and specific detection of adenosine-5'-triphosphate (ATP) by using an aptamer. The binding of ATP molecules on the aptamer films could be calculated as accurate mass changes using multiple frequency and dissipation measurements. The detection is achieved by calculating the mass changes from conformational rearrangements of the sensor surface upon interaction with the target. The sensor was demonstrated to respond to changes in ATP concentrations in real time suitable for continuous monitoring applications. This sensor showed excellent selectivity toward ATP compared with other chemically similar nucleotide GTP. The feasibility of the sensor was demonstrated by analyzing ATP concentrations in cell culture media with serum. The maximum frequency change was about -2 Hz after injection of 500 μM ATP. The affinity constant of the aptamer was determined to be 49 ± 7.59 μM. The proposed sensor can extend the application of the QCM-D system in medical diagnosis, and could be adopted for the detection of other small molecules with the use of specific aptamers.     

Multifunctional chemical vapor sensors of aligned carbon nanotube and polymer composites

Partially coating perpendicularly aligned carbon nanotube arrays with an appropriate polymer thin film along their tube length provides a novel concept for developing new sensors of high sensitivity, good selectivity, and excellent environmental stability for the detection of a broad class of chemical vapors with low power consumption. The absorption and desorption of chemical vapors by the polymer matrix cause changes in the inter-tube distance and, hence, the surface resistance across the nanotube film. Simple measurements of the resistance change, therefore, constitute the nanotube-polymer chemical vapor sensors. These rationally designed, aligned carbon nanotube-polymer composite films are flexible and can be effectively integrated into many systems for a wide range of potential applications, including their use as multifunctional sensors for sensing chemical vapors, mechanical deformations, thermal and optical exposures.     

核酸适体功能化的二维材料场效应晶体管传感器研究进展

二维材料场效应晶体管传感器具有可调的电学性质和高的灵敏度, 非常适合用于构建高性能的传感器, 应用于疾病诊断和环境监测等领域. 核酸适体是一种生物识别分子, 具有特异性强、 稳定性高等优势. 近年来, 核酸适体功能化的二维材料场效应晶体管传感器在医疗诊断和环境监测等领域取得了显著的研究进展. 本文综合评述了核酸适体功能化的二维材料场效应晶体管传感器的最新研究进展, 对场效应晶体管传感器的结构及传感原理进行了概括, 详细介绍了二维材料的制备方法以及核酸适体功能化器件的设计原理. 在此基础上, 对核酸适体功能化的二维材料场效应晶体管传感器在疾病诊断和环境监测领域的应用进展进行了概述, 讨论了核酸适体功能化的二维材料场效应晶体管传感器面临的一些问题和挑战, 对其发展前景进行了展望.     

Electronically monitoring biological interactions with carbon nanotube field-effect transistors

The year 2008 marks the 10th anniversary of the carbon nanotube field-effect transistor (NTFET). In the past decade a vast amount of effort has been placed on the development of NTFET based sensors for the detection of both chemical and biological species. Towards this end, NTFETs show great promise because of their extreme environmental sensitivity, small size, and ultra-low power requirements. Despite the great progress NTFETs have shown in the field of biological sensing, debate still exists over the mechanistic origins underlying the electronic response of NTFET devices, specifically whether analyte species interact with the carbon nanotube conduction channel or if interaction with the NTFET electrodes actually triggers device response. In this tutorial review, we describe the fabrication of NTFET devices, and detail several reports that illustrate recent advances in biological detection using NTFET devices, while highlighting the suggested mechanisms explaining the device response to analyte species. In doing this we hope to show that NTFET technology has the potential for low-cost and portable bioanalytical platforms.     

Dual-polarization interferometry for quantification of small molecules using aptamers

An interferometry-based method was developed for detection of a small molecule, argininamide. The quantification of argininamide was demonstrated using aptamers immobilized on silicone oxynitride sensor surface via avidin–biotin binding. The aptamers formed a thin film over avidin layer corresponding to a thickness of 1.2 nm, consistent with a molecular positioning of multipoint attachment to the surface. The binding of argininamide did not cause any significant changes in the thickness of the aptamer film, suggesting that the specific binding did not affect the overall conformation of the aptamer molecules after adaptive rearrangement of aptamer molecules. However, the binding results in clearly detectable changes in mass calculated from multiple parameters determined by mass deposition and structural changes. The limit of detection of the developed sensor was determined to be 5 μM. The sensor can monitor real-time changes in argininamide concentrations with high reliability and sensitivity. The model system demonstrated that a combined measurement considering structural and mass changes through interferometry-based techniques can overcome one of the major problems associated with real-time monitoring of small mass analytes.     

Toward quantifying the electrostatic transduction mechanism in carbon nanotube molecular sensors

Despite the great promise of carbon nanotube field-effect transistors (CNT FETs) for applications in chemical and biochemical detection, a quantitative understanding of sensor responses is lacking. To explore the role of electrostatics in sensor transduction, experiments were conducted with a set of highly similar compounds designed to adsorb onto the CNT FET via a pyrene linker group and take on a set of known charge states under ambient conditions. Acidic and basic species were observed to induce threshold voltage shifts of opposite sign, consistent with gating of the CNT FET by local charges due to protonation or deprotonation of the pyrene compounds by interfacial water. The magnitude of the gate voltage shift was controlled by the distance between the charged group and the CNT. Additionally, functionalization with an uncharged pyrene compound showed a threshold shift ascribed to its molecular dipole moment. This work illustrates a method for producing CNT FETs with controlled values of the turnoff gate voltage, and more generally, these results will inform the development of quantitative models for the response of CNT FET chemical and biochemical sensors.     

State-of-the-art molecular imprinted colorimetric sensors and their on-site inspecting applications

Molecular imprinted colorimetric sensors can realize visual semi-quantitative analysis without the use of any equipment. With the advantages of low cost, fast response, ease of handling, and excellent recognition ability, the molecular imprinted colorimetric sensor shows great application potential in the field of sample rapid assay. Molecular imprinted colorimetric sensors can be prepared in various forms to meet the needs of different sample determination, such as film, hydrogel, strip, and adsorption coating. In this review, the preparation methods for various types of molecularly imprinted colorimetric sensors are systematically introduced. Their applications in the field of on-site biological sample detection, drug detection, disease treatment, chiral substance detection and separation, environmental analysis, and food safety detection are introduced. The limitations encountered in the practical application are presented, and the future development directions prospect.     

Noncovalent interactions of molecules with single walled carbon nanotubes

In this critical review we survey non-covalent interactions of carbon nanotubes with molecular species from a chemical perspective, particularly emphasising the relationship between the structure and dynamics of these structures and their functional properties. We demonstrate the synergistic character of the nanotube-molecule interactions, as molecules that affect nanotube properties are also altered by the presence of the nanotube. The diversity of mechanisms of molecule-nanotube interactions and the range of experimental techniques employed for their characterisation are illustrated by examples from recent reports. Some practical applications for carbon nanotubes involved in non-covalent interactions with molecules are discussed.     

Carbon nanotube gas and vapor sensors

Carbon nanotubes have aroused great interest since their discovery in 1991. Because of the vast potential of these materials, researchers from diverse disciplines have come together to further develop our understanding of the fundamental properties governing their electronic structure and susceptibility towards chemical reaction. Carbon nanotubes show extreme sensitivity towards changes in their local chemical environment that stems from the susceptibility of their electronic structure to interacting molecules. This chemical sensitivity has made them ideal candidates for incorporation into the design of chemical sensors. Towards this end, carbon nanotubes have made impressive strides in sensitivity and chemical selectivity to a diverse array of chemical species. Despite the lengthy list of accomplishments, several key challenges must be addressed before carbon nanotubes are capable of competing with state-of-the-art solid-state sensor materials. The development of carbon nanotube based sensors is still in its infancy, but continued progress may lead to their integration into commercially viable sensors of unrivalled sensitivity and vanishingly small dimensions.     

Au NPs-aptamer conjugates as a powerful competitive reagent for ultrasensitive detection of small molecules by surface plasmon resonance spectroscopy

Features of Au NPs-aptamer conjugates as a powerful competitive reagent to substitute antibody in enhancing surface plasmon resonance spectroscopy (SPR) signal for the detection of small molecule are explored for the first time. In order to evaluate the sensing ability of Au NPs-aptamer conjugates as a competitive reagent, a novel SPR sensor based on indirect competitive inhibition assay (ICIA) for the detection of adenosine is constructed by employing the competitive reaction between antiadenosine aptamer with adenosine and antiadenosine aptamer with its partial complementary ss-DNA. The partial complementary ss-DNA of antiadenosine aptamer is firstly immobilized on SPR gold film as sensing surface. When the Au NPs-antiadenosine aptamer conjugates solution is added to SPR cell in the absence of adenosine, Au NPs-antiadenosine aptamer conjugates is adsorbed to SPR sensor by the DNA hybridization reaction, and results in a large change of SPR signal. However, the change of SPR signal is decreased when the mixing solution of adenosine with Au NPs-antiadenosine aptamer conjugates is added. This is because adenosine reacts with antiadenosine aptamer in Au NPs-antiadenosine aptamer conjugates and changes its structure from ss-DNA to tertiary structure, which cannot hybridize with its partial complementary ss-DNA immobilized on SPR gold surface. Based on this principle, a SPR sensor for indirect detection of adenosine can be developed. The experimental results confirm that the SPR sensor possesses a good sensitivity and a high selectivity for adenosine, which indirectly confirms that Au NPs-aptamer conjugates is a powerful competitive reagent. More significantly, it can be used to develop other SPR sensors based on ICIA to detect different targets by changing the corresponding type of aptamer in Au NPs-aptamer conjugates.     

Submicrometer cavity surface plasmon sensors

A miniaturized spherical surface plasmon sensor for measuring the binding kinetics of unlabeled molecules is introduced. The sensor has a submicrometer footprint with a sensitivity that rivals that of state-of-the-art commercial planar surface plasmon sensors, which makes it valuable for applications requiring integration of detection of molecular species in microfluidic channels. The basic principle of the sensor is exploiting the wavelength shifts of the cavity resonances of a metal-coated submicrometer sphere embedded in an opaque metal film due to molecular adsorption. The sensor has been found to be exquisitely responsive in air to water and ethanol vapor adsorption on the bare gold sensor surface. When immersed in a liquid, the sensor can detect the adsorption of less than one monolayer of dodecanethiol (approximately 1.5 nm) on the gold coating of the sphere.     

Pathogen detection in complex samples by quartz crystal microbalance sensor coupled to aptamer functionalized core–shell type magnetic separation

A quartz crystal microbalance sensor (QCM) was developed for sensitive and specific detection of Salmonella enterica serovar typhimurium cells in food samples by integrating a magnetic bead purification system. Although many sensor formats based on bioaffinity agents have been developed for sensitive and specific detection of bacterial cells, the development of robust sensor applications for food samples remained a challenging issue. A viable strategy would be to integrate QCM to a pre-purification system. Here, we report a novel and sensitive high throughput strategy which combines an aptamer-based magnetic separation system for rapid enrichment of target pathogens and a QCM analysis for specific and real-time monitoring. As a proof-of-concept study, the integration of Salmonella binding aptamer immobilized magnetic beads to the aptamer-based QCM system was reported in order to develop a method for selective detection of Salmonella. Since our magnetic separation system can efficiently capture cells in a relatively short processing time (less than 10 min), feeding captured bacteria to a QCM flow cell system showed specific detection of Salmonella cells at 100 CFU mL⁻¹ from model food sample (i.e., milk). Subsequent treatment of the QCM crystal surface with NaOH solution regenerated the aptamer-sensor allowing each crystal to be used several times.     

Charge transfer from metallic single-walled carbon nanotube sensor arrays

This paper explores the possibility of using arrays of metallic carbon nanotubes as sensors. Unlike their semiconducting counterparts, single-walled carbon nanotube arrays or networks that are dominated by metallic conduction pathways have not been investigated for their environmental sensitivity. In this work, we demonstrate transduction of molecular adsorption via charge transfer through predominantly metallic single-walled carbon nanotubes. Raman spectroscopy and electric field dependent transport confirm that signal transduction takes place through primarily large diameter metallic nanotubes. This unique signal transduction mechanism might have implications for novel sensors. The scaling of the signal with array impedance is well described using an irreversible binding model developed previously. The arrays have several advantages including a simple, two-electrode fabrication, rapid regeneration, and a responsivity that scales predictably and linearly with the number of adsorption sites. An array-assisted hydrolysis of reactive analytes is found to regenerate the nanotube surface from hydrolyzable species which include important organophosphate nerve agents.