Transcription immunoassay: light-up RNA aptamer-based immunoassay using in vitro transcription

Molecularly imprinted polymers for sensing/depleting human serum albumin (HSA): A critical review of recent advances and current challenges

Human serum albumin (HSA) is an essential biomacromolecule in the blood circulatory system because it carries numerous molecules, including fatty acids (FAs), bilirubin, metal ions, hormones, and different pharmaceuticals, and plays a significant role in regulating blood osmotic pressure. Fluctuations in HSA levels in human biofluids, particularly urine and serum, are associated with several disorders, such as elevated blood pressure, diabetes mellitus (DM), liver dysfunction, and a wide range of renal diseases. Thus, the ability to quickly and accurately measure HSA levels is important for the rapid identification of these disorders in human populations. Molecularly imprinted polymers (MIPs), well known as artificial antibodies (Abs), have been extensively used for the quantitative detection of small molecules and macromolecules, especially HSA, in recent decades. This review highlights major challenges and recent developments in the application of MIPs to detect HSA in artificial and real samples. The fabrication and application of various MIPs for the depletion of HSA are also discussed, as well as different MIP preparation approaches and strategies for overcoming obstacles that hinder the development of MIPs with high efficiency and recognition capability for HSA determination/depletion.

Single-Atom Site SERS Chip for Rapid, Ultrasensitive, and Reproducible Direct-Monitoring of RNA Binding

Ribonucleic acids (RNA) play active roles within cells or viruses by catalyzing biological reactions, controlling gene expression, and communicating responses to cellular signals. Rapid monitoring RNA variation has become extremely important for appropriate clinical decisions and frontier biological research. However, the most widely used method for RNA detection, nucleic acid amplification, is restricted by a mandatory temperature cycling period of ≈1 h required to reach target detection criteria. Herein, a direct detection approach via single-atom site integrated surface-enhanced Raman scattering (SERS) monitoring nucleic acid pairing reaction, can be completed within 3 min and reaches high sensitivity and extreme reproducibility for COVID-19 and two other influenza viruses' detection. The mechanism is that a single-atom site on SERS chip, enabled by positioning a single-atom oxide coordinated with a specific complementary RNA probe on chip nanostructure hotspots, can effectively bind target RNA analytes to enrich them at designed sites so that the binding reaction can be detected through Raman signal variation. This ultrafast, sensitive, and reproducible single-atom site SERS chip approach paves the route for an alternative technique of immediate RNA detection. Moreover, single-atom site SERS is a novel surface enrichment strategy for SERS active sites for other analytes at ultralow concentrations.

Lighting-up aptamer transcriptional amplification for highly sensitive and label-free FEN1 detection

Specific and sensitive detection of flap endonuclease 1 (FEN1), an enzyme biomarker involved in DNA replications and several metabolic pathways, is of high values for the diagnosis of various cancers. In this work, a fluorescence strategy based on transcriptional amplification of lighting-up aptamers for label-free, low background and sensitive monitoring of FEN1 is developed. FEN1 cleaves the 5' flap of the DNA complex probe with double flaps to form a notched dsDNA, which is ligated by T4 DNA ligase to yield fully complementary dsDNA. Subsequently, T7 RNA polymerase binds the promoter region to initiate cyclic transcriptional generation of many RNA aptamers that associate with the malachite green dye to yield highly amplified fluorescence for detecting FEN1 with detection limit as low as 0.22 pM in a selective way. In addition, the method can achieve diluted serum monitoring of low concentrations of FEN1, exhibiting its potential for the diagnosis of early-stage cancers.

MicroRNA detection using light-up aptamer amplification based on nuclease protection transcription

The quantification of microRNAs (miRNAs) is important because the miRNA expression level is closely associated with the occurrence and development of diseases. Here, we report a simple nuclease protection transcription...

The dynamicity of light-up aptamers in one-pot in vitro diagnostic assays

Light-up aptamers are aptamers that ignite the fluorescence emission of certain dyes upon binding. Widely harnessed in in vivo imaging, the binding capacity of the light-up aptamers can also be deployed in in vitro diagnostic assays, engendering a mix-and-read format. Intrigued by this, I intend to provide an overview of the various formats of diagnostic assays developed using light-up aptamers from the direct modulation of the light-up aptamers, split aptamer-based configuration, strand displacement, in vitro transcription-based one-pot diagnostic assay, CRISPR-Cas system to the measurement of the ion reliance. The incorporation of the light-up aptamers into each configuration is expounded and further supported by describing the exemplary assays developed thus far. It is anticipated that the present study can be enlightening to any researchers who aspire to embark on the development of one-pot in vitro diagnostic assays based on light-up aptamers.

Development and Applications of Fluorogen/Light-Up RNA Aptamer Pairs for RNA Detection and More

The central role of RNA in living systems made it highly desirable to have noninvasive and sensitive technologies allowing for imaging the synthesis and the location of these molecules in living cells. This need motivated the development of small pro-fluorescent molecules called "fluorogens" that become fluorescent upon binding to genetically encodable RNAs called "light-up aptamers." Yet, the development of these fluorogen/light-up RNA pairs is a long and thorough process starting with the careful design of the fluorogen and pursued by the selection of a specific and efficient synthetic aptamer. This chapter summarizes the main design and the selection strategies used up to now prior to introducing the main pairs. Then, the vast application potential of these molecules for live-cell RNA imaging and other applications is presented and discussed.

Genetically encoded light-up RNA aptamers and their applications for imaging and biosensing

Intracellular small ligands and biomacromolecules are playing crucial roles not only as executors but also as regulators. It is essential to develop tools to investigate their dynamics to interrogate their functions and reflect the cellular status. Light-up RNA aptamers are RNA sequences that can bind with their cognate nonfluorescent fluorogens and greatly activate their fluorescence. The emergence of genetically encoded light-up RNA aptamers has provided fascinating tools for studying intracellular small ligands and biomacromolecules owing to their high fluorescence activation degree and facile programmability. Here we review the burgeoning field of light-up RNA aptamers. We first briefly introduce light-up RNA aptamers with a focus on the photophysical properties of the fluorogens. Then design strategies of genetically encoded light-up RNA aptamer based sensors including turn-on, signal amplification and ratiometric rationales are emphasized.

Double ion-exchange reaction-based photoelectrochemical immunoassay for sensitive detection of prostate-specific antigen

This work developed a double ion-exchange reaction-based photoelectrochemical (PEC) immunoassay with the split-type detection mode for sensitive detection of prostate-specific antigen (PSA, used as a model). The nanocomposite of cadmium sulfide and nickel sulfide (CdS@NiS nanocomposite), as the photoactive material, was rapidly synthesized by two-step hydrothermal treatment. In the presence of target PSA, the cupric oxide nanoparticle (CuO NP) labeled detection antibody was introduced into the detection system by sandwich immunoreaction and the copper (Cu²⁺) ions was released from CuO nanoparticles by acid to participate in double ion-exchange reaction. The double ion-exchange reaction on the photoelectric sensing interface between Cu²⁺ and CdS@NiS nanocomposites formed the weak photoactive material Cu_xS (x = 1, 2) to reduce the photocurrent. Under optimal conditions, the double ion-exchange reaction-based PEC immunoassay exhibited good photocurrent responses toward target PSA within the dynamic working range from 0.01 ng mL^-1 to 50 ng mL^-1 at a low limit of detection (LOD) of 2.9 pg mL^-1. Besides, our work could achieve good reproducibility and high specificity under the split-type detection mode. Compared with human PSA ELISA kit, the accuracy obtained by our strategy was satisfactory. Importantly, this Cu²⁺-activated double ion-exchange reaction-based PEC immunoassay provides a promising platform for the detection of biomarkers.

A highly sensitive and versatile transcription immunoassay using a DNA-encoding tandem repetitive light-up aptamer

Highly sensitive and accurate measurements of protein biomarkers are crucial for early diagnosis and disease monitoring. Here we report a versatile detection platform for sensitive detection of a protein biomarker using a tandem repeat Spinach aptamer DNA-based transcription immunoassay, which is a immunoassay combined with transcription-assisted Spinach RNA aptamer generation. We designed a DNA template encoding spa tandem repetitive Spinach sequence for enhanced generation of an RNA aptamer. The tandem repeated Spinach DNA template is consist of multiple monomeric units which is composed of T7 promoter, Spinach-2 and terminator. After in vitro transcription, the fluorescence signal from the 16R (nR, n = number of repeats) DNA template was enhanced up to ~ 15-fold compared to a single form (1R) DNA template. Using tandem repeat DNA, the proposed transcription immunoassay showed a limit of detection (LOD) of 37 aM, which is 10³-fold lower than that of the conventional enzyme-linked immunosorbent assay (ELISA). The results demonstrate substantial promise for the ultrasensitive detection of various biological analytes using simple ELISA techniques. The high sensitivity and reliability of the proposed transcription immunoassay offer great promise for clinical assays.

Platinum Nanozyme-Triggered Pressure-Based Immunoassay Using a Three-Dimensional Polypyrrole Foam-Based Flexible Pressure Sensor

This work describes a novel and portable pressure-based point-of-care (POC) testing strategy for the sensitive and rapid detection of carcinoembryonic antigen (CEA) via a flexible pressure sensor constructed by three-dimensional (3D) polypyrrole (PPy) foam. Initially, platinum nanoparticles (PtNPs) were conjugated to the detection antibodies, which were used to form sandwich-type immunocomplexes with targets and capture antibodies in the reaction cell. Then, the carried PtNPs catalyzed the dissociation of hydrogen peroxide (H₂O₂) for the generation of oxygen (O₂) in a sealed device, translating the biomolecule recognition event into gas pressure. With the increase of pressure, a flexible pressure sensor with 3D polypyrrole foam as the sensing layer was used to sensitively monitor the pressure variations in this system. Thus, the concentration of the target could be quantitatively determined by the pressure response. Under optimal conditions, the pressure-based immunosensor showed good sensing performance for CEA in the dynamic working range from 0.2 to 60 ng/mL with a detection limit of 0.13 ng/mL. The reproducibility, specificity, and accuracy compared with commercial enzyme-linked immunosorbent assay (ELISA) kit were also acceptable. Therefore, this work provides a promising approach for developing portable and sensitive POC testing in the future.

A surfactant-mediated sol-gel method for the preparation of molecularly imprinted polymers and its application in a biomimetic immunoassay for the detection of protein

Molecularly imprinted polymers have demonstrated tremendous potential in the immunoassay as alternatives to biological antibodies. However, the production of molecularly imprinted polymers for protein remains great challenges because of structural complexity and organic solvent instability. In addition, non-specific binding sites in the molecularly imprinted polymers debase the feasibility of it as alternative to antibodies for immunoassay. Here, a surfactant-mediated sol-gel system in an aqueous environment was designed to produce the molecularly imprinted polymers for protein. A blocked strategy was introduced to decrease non-specific cross-reactivity and to improve the selectivity. The developed products were characterized by infrared spectroscopy, scanning electron microscope, transmission electron microscope, X-ray photoelectron spectroscopy, and vibrating sample magnetometer, respectively. The obtained molecularly imprinted polymers exhibited desirable specific recognition towards the target and a biomimetic immunoassay method was developed. The method exhibited a good linear response to human serum albumin in a concentration range of 1-100 μg mL^-1. The limit of detection of this method was 0.3 μg mL^-1 (3s/K), and good recoveries ranging from 85.4-104.5% were achieved. This study demonstrated that the molecularly imprinted polymers prepared by the surfactant-mediated sol-gel method can produce high selectivity materials, which had great potential to replace antibodies in a biomimetic immunoassay.

Progress in the isolation of aptamers to light-up the dyes and the applications

The progress in the selection of aptamers to light-up the dyes and the related applications are reviewed.

A transcription aptasensor: amplified, label-free and culture-independent detection of foodborne pathogens via light-up RNA aptamers

We report a transcription aptasensor by using a light-up RNA aptamer. It allows for sensitive, label-free and culture-free detection of intact foodborne pathogens, and no separation, purification or enrichment processes are involved.