DNA strand displacement based surface-enhanced Raman scattering-fluorescence dual-mode nanoprobes for quantification and imaging of vascular endothelial growth factor in living cells

Recent progress on biosensors for detection of circulating miRNA biomarkers

Circulating miRNAs are a class of non-coding endogenous RNAs found in body fluids which typically consist of 19-24 nucleotides in length. The abnormal expression of miRNAs has been demonstrated to be associated with severe human diseases. Aiming to provide valuable insights for the further development of reliable miRNA detectors for disease early diagnosis and treatment, this work systematically summarizes the latest advancements in signal amplification strategies for miRNA analysis, based on nanomaterials, nucleic acids, enzymes, and CRISPR/Cas system. The emerging techniques for detecting circulating miRNAs in human body fluids over the past decade are highlighted, including electrochemical, optical, and dual-mode biosensors. Furthermore, the challenges of trace miRNA detection in complex samples and the development prospects of miRNA biosensors are also discussed.

Magnetic-plasmonic nanoparticle-based surface-enhanced Raman scattering for biomedical detection

Surface-enhanced Raman scattering (SERS) is a powerful spectroscopic technique that enables rapid, non-destructive, and susceptible detection of biological samples. The magnetic-plasmonic composite materials composed of magnetic and plasmonic nanoparticles have attracted extensive attention as SERS substrates in the biomedical field because of their ability to enrich, separate, and selectively identify biomolecules. In this review, the state-of-art progress of magnetic-plasmonic nanoparticle (MPNP)-based SERS substrates for biomedical detection is highlighted, covering the design and construction of MPNPs with different morphologies, organic and inorganic surface functionalization strategies adopted to improve the adaptability and applicability in biological systems for MPNPs, application development of MPNPs in biomedical detection, as well as the future challenges and issues to be addressed. It is highly expected that this review will help to fully understand the research status of MPNP-based SERS substrates and facilitate their further development and wider application in biological systems.

Factors that Affect Quantification in Surface-Enhanced Raman Scattering

Surface-enhanced Raman scattering (SERS) is an analytical technique capable of detecting trace amounts of specific species. The uniqueness of vibrational signatures is a major advantage of SERS. This combination of sensitivity and specificity has motivated researchers to develop diverse analytical methodologies leveraging SERS. However, even 50 years after its first observation, SERS is still perceived as an unreliable technique for quantification. This perception has precluded the application of SERS in laboratories that rely on consistent quantification (for regulatory purposes, for instance). In this review, we describe some of the aspects that lead to SERS intensity variations and how those challenges were addressed in the 50 years of the technique. The goal is to identify the sources of variations in SERS intensities and then demonstrate that, even with these pitfalls, the technique can be used for quantification when factors such as nature of the substrate, experimental conditions, sample preparation, surface chemistry, and data analysis are carefully considered and tailored for a particular application.

Visualizing DNA/RNA, Proteins, and Small Molecule Metabolites within Live Cells

Live cell imaging is essential for obtaining spatial and temporal insights into dynamic molecular events within heterogeneous individual cells, in situ intracellular networks, and in vivo organisms. Molecular tracking in live cells is also a critical and general requirement for studying dynamic physiological processes in cell biology, cancer, developmental biology, and neuroscience. Alongside this context, this review provides a comprehensive overview of recent research progress in live-cell imaging of RNAs, DNAs, proteins, and small-molecule metabolites, as well as their applications in molecular diagnosis, immunodiagnosis, and biochemical diagnosis. A series of advanced live-cell imaging techniques have been introduced and summarized, including high-precision live-cell imaging, high-resolution imaging, low-abundance imaging, multidimensional imaging, multipath imaging, rapid imaging, and computationally driven live-cell imaging methods, all of which offer valuable insights for disease prevention, diagnosis, and treatment. This review article also addresses the current challenges, potential solutions, and future development prospects in this field.

Three-Dimensional DNA Hydrogel Mediated Dual-Mode Sensing Method for Quantification of Epithelial Cell Adhesion Molecule in Biological Fluid Samples

Monitoring changes in the expression of marker proteins in biological fluids is essential for biomarker-based disease diagnosis. Epithelial cell adhesion molecule (EpCAM) has been identified as a broad-spectrum biomarker for various chronic diseases and as a therapeutic target. However, the development of simple and reliable methods for quantifying EpCAM changes in biological fluids faces challenges due to the variability of its expression across different diseases, the presence of soluble forms, and matrix effects. In this paper, a surface-enhanced Raman scattering (SERS)-fluorescence (FL) dual-mode sensing method was established for quantification of trace EpCAM in biological fluids based on bimetallic Au@Ag nanoparticles and nitrogen-doped quantum dots encapsulated DNA hydrogel hybrid with graphene oxide (Au@Ag-NQDs/GO). The DNA hydrogel was constructed based on three-dimensional (3D) structure DNA-mediated strategy using an aptamer DNA (AptDNA) linker. The interaction of the AptDNA with EpCAM triggered the disassembly of the DNA hydrogel. Consequently, the release of Au@Ag nanoparticles induced an "on-off" switch in the SERS signal while the weakened FL quenching effect in Au@Ag-NQDs/GO system achieved "off-on" switch of FL signal, enabling the simultaneous SERS-FL quantification of EpCAM. The established dual-mode method exhibited outstanding sensitivity and stability in quantifying EpCAM in the range of 0.5-60.0 pg/mL, with the limits of detection (LODs) of SERS and FL as 0.17 and 0.35 pg/mL, respectively. When applied for real sample analysis, the method showed satisfactory specificity and recoveries in cancer cells lysate, serum, and urine samples with RSDs of 2.8-6.3%, 4.0-6.3%, and 2.8-5.7%, respectively. The developed SERS-FL sensing method offered a sensitive, reliable, and practical quantification strategy for trace EpCAM in diverse biological fluid samples, which would benefit the early diagnosis of disease and further health management.

Multi-modal nanoprobe-enabled biosensing platforms: a critical review

Nanomaterials show great potential for applications in biosensing due to their unique physical, chemical, and biological properties. However, the single-modal signal sensing mechanism greatly limits the development of single-modal nanoprobes and their related sensors. Multi-modal nanoprobes can realize the output of fluorescence, colorimetric, electrochemical, and magnetic signals through composite nanomaterials, which can effectively compensate for the defects of single-modal nanoprobes. Following the multi-modal nanoprobes, multi-modal biosensors break through the performance limitation of the current single-modal signal and realize multi-modal signal reading. Herein, the current status and classification of multi-modal nanoprobes are provided. Moreover, the multi-modal signal sensing mechanisms and the working principle of multi-modal biosensing platforms are discussed in detail. We also focus on the applications in pharmaceutical detection, food and environmental fields. Finally, we highlight this field's challenges and development prospects to create potential enlightenment.

Advances in human reproductive biomarkers

Reproductive biomarkers are important regulators in women, especially during pregnancy and childbirth. Because of their essential role in women's health, the discovery and quantification of reproductive biomarkers is of great clinical importance. Nowadays, there are many detection strategies to detect these biomarkers, including VEGF, human chorionic gonadotropin (hCG), etc. Consider the limitations and problems of conventional diagnostic methods, new methods are being developed, one of the most important being methods based on nanotechnology. This review includes a review of methods for diagnosing reproductive biomarkers, ranging from mainstream to nanotechnology-based methods. The bulk of this article is an in-depth introduction to the latest advances in biosensor and nanosensor research for the detection and quantitative identification of reproductive biomarkers.

Concatenated dynamic DNA network modulated SERS aptasensor based on gold-magnetic nanochains and Au@Ag nanoparticles for enzyme-free amplification analysis of tetracycline

Tetracycline (TC) poses a great threat to food and environmental safety due to its misuse in animal husbandry and aquaculture. Therefore, an efficient analytical method is needed for the detection of TC to prevent possible hazards. Herein, a cascade amplification SERS aptasensor for sensitive determination of TC was constructed based on aptamer, enzyme-free DNA circuits, and SERS technology. The capture probe and signal probe were obtained by binding DNA hairpins H1 and H2 to the prepared Fe₃O₄@hollow-TiO₂/Au nanochains (Fe₃O₄@h-TiO₂/Au NCs) and Au@4-MBA@Ag nanoparticles, respectively. The dual amplification of EDC-CHA circuits significantly facilitated the sensitivity of the aptasensor. Additionally, the introduction of Fe₃O₄ simplified the operation of the sensing platform due to its superb magnetic capability. Under optimal conditions, the developed aptasensor exhibited a distinct linear response to TC with a low limit of detection of 15.91 pg mL^-1. Furthermore, the proposed cascaded amplification sensing strategy exhibited excellent specificity and storage stability, and its practicability and reliability were verified by TC detection of real samples. This study provides a promising idea for the development of specific and sensitive signal amplification analysis platforms in the field of food safety.

Recent Advances in the DNA-Mediated Multi-Mode Analytical Methods for Biological Samples

DNA-mediated nanotechnology has become a research hot spot in recent decades and is widely used in the field of biosensing analysis due to its distinctive properties of precise programmability, easy synthesis and high stability. Multi-mode analytical methods can provide sensitive, accurate and complementary analytical information by merging two or more detection techniques with higher analytical throughput and efficiency. Currently, the development of DNA-mediated multi-mode analytical methods by integrating DNA-mediated nanotechnology with multi-mode analytical methods has been proved to be an effective assay for greatly enhancing the selectivity, sensitivity and accuracy, as well as detection throughput, for complex biological analysis. In this paper, the recent progress in the preparation of typical DNA-mediated multi-mode probes is reviewed from the aspect of deoxyribozyme, aptamer, templated-DNA and G-quadruplex-mediated strategies. Then, the advances in DNA-mediated multi-mode analytical methods for biological samples are summarized in detail. Moreover, the corresponding current applications for biomarker analysis, bioimaging analysis and biological monitoring are introduced. Finally, a proper summary is given and future prospective trends are discussed, hopefully providing useful information to the readers in this research field.

Recent advances in optical aptasensors for biomarkers in early diagnosis and prognosis monitoring of hepatocellular carcinoma

Hepatocellular carcinoma (HCC) accounts for approximately 90% of all primary liver cancers and is one of the main malignant tumor types globally. It is essential to develop rapid, ultrasensitive, and accurate strategies for the diagnosis and surveillance of HCC. In recent years, aptasensors have attracted particular attention owing to their high sensitivity, excellent selectivity, and low production costs. Optical analysis, as a potential analytical tool, offers the advantages of a wide range of targets, rapid response, and simple instrumentation. In this review, recent progress in several types of optical aptasensors for biomarkers in early diagnosis and prognosis monitoring of HCC is summarized. Furthermore, we evaluate the strengths and limitations of these sensors and discuss the challenges and future perspectives for their use in HCC diagnosis and surveillance.

A fluorescence and surface-enhanced Raman scattering dual-mode aptasensor for sensitive detection of deoxynivalenol based on gold nanoclusters and silver nanoparticles modified metal-polydopamine framework

Deoxynivalenol (DON), a common mycotoxin produced by Fusarium species, poses a great threat to human and animal body. Hence, it is of significance to develop an ultrasensitive and reliable method for DON detection. Herein, a fluorescence and surface-enhanced Raman scattering (FL-SERS) dual-mode aptasensor was designed for the detection of DON based on gold nanoclusters (Au NCs) and silver nanoparticles modified metal-polydopamine framework (Ag NPs/MPDA). In this aptasensor, complementary DNA modified Au NCs (cDNA-Au NCs) was selected as fluorescence probe, and 6-carboxytetramethylrhodamine (TAMRA)-labeled aptamer modified Ag NPs/MPDA (Ag NPs/MPDA-Apt-TAMRA) was employed as SERS probe, in which Ag NPs/MPDA acted as SERS substance and fluorescence quencher, and TAMRA acted as Raman label. The superior binding affinity of the aptamer with DON to cDNA can regulate the fluorescence and Raman signal intensities and realize the quantitative determination of DON. Under the optimal conditions, the aptasensor exhibited a low detection limit of 0.08 ng mL^-1 (0.1-100 ng mL^-1) in FL mode and 0.06 ng mL^-1 (0.1-100 ng mL^-1) in SERS mode. In addition, it was successfully applied for DON detection in wheat flour. We believe that the proposed FL-SERS strategy has a promising application in the detection of mycotoxins.

Novel metal enhanced dual-mode fluorometric and SERS aptasensor incorporating a heterostructure nanoassembly for ultrasensitive T-2 toxin detection

Fluorescent gold (Au) nanostructures have emerged as burgeoning materials to fabricate nanomaterial assemblies which play a vital role in improving the detection sensitivity and specificity for various biomolecules. In this work, a fluorescence labelled (Rhodamine-B-Isothiocyanate) silica shell with Au metal core (AuNPs@PVP@RITC@SiO₂) and a graphene-Au nanostar nanocomposite (rGO-AuNS) are presented as a metal enhanced fluorescence (MEF) material and Raman signal enhancer, respectively. Their composite (AuNPs@PVP@RITC@SiO₂NPs/rGO-AuNS) was employed as a dual-mode fluorescence (FL) and surface-enhanced Raman scattering (SERS) nanoprobe for selective and sensitive detection of T-2 toxin. To comprehend the dual-modality, a core-shell nanostructure, AuNPs@PVP@RITC@SiO₂, was functionalized with an aptamer (donor) and adsorbed on the surface of rGO-AuNS through electrostatic forces and π-π stacking which act as a FL quencher and SERS signal enhancer. When exposed to T-2 toxin, the apt-AuNPs@PVP@RITC@SiO₂NPs move away from the surface of rGO-AuNS, resulting in the restoration of FL and reduction of the SERS signal. There was distinct linearity between the T-2 toxin concentration and the dual FL and SERS signals with lower limits of detection (LOD) of 85 pM and 12 pM, as compared to the previous methods, respectively. The developed FL and SERS aptasensor presented excellent recovery ratio and RSD in wheat and maize, respectively, as compared with the standard ELISA method. The complementary performances of the developed stratagem revealed a high correlation between the FL and SERS sensing modes with exquisite detection properties.

A Review of Magnetic Nanoparticle-Based Surface-Enhanced Raman Scattering Substrates for Bioanalysis: Morphology, Function and Detection Application

Surface-enhanced Raman scattering (SERS) is a kind of popular non-destructive and water-free interference analytical technology with fast response, excellent sensitivity and specificity to trace biotargets in biological samples. Recently, many researches have focused on the preparation of various magnetic nanoparticle-based SERS substrates for developing efficient bioanalytical methods, which greatly improved the selectivity and accuracy of the proposed SERS bioassays. There has been a rapid increase in the number of reports about magnetic SERS substrates in the past decade, and the number of related papers and citations have exceeded 500 and 2000, respectively. Moreover, most of the papers published since 2009 have been dedicated to analytical applications. In the paper, the recent advances in magnetic nanoparticle-based SERS substrates for bioanalysis were reviewed in detail based on their various morphologies, such as magnetic core-shell nanoparticles, magnetic core-satellite nanoparticles and non-spherical magnetic nanoparticles and their different functions, such as separation and enrichment, recognition and SERS tags. Moreover, the typical application progress on magnetic nanoparticle-based SERS substrates for bioanalysis of amino acids and protein, DNA and RNA sequences, cancer cells and related tumor biomarkers, etc., was summarized and introduced. Finally, the future trends and prospective for SERS bioanalysis by magnetic nanoparticle-based substrates were proposed based on the systematical study of typical and latest references. It is expected that this review would provide useful information and clues for the researchers with interest in SERS bioanalysis.

Biosynthesis-mediated Ni-Fe-Cu LDH-to-sulfides transformation enabling sensitive detection of endogenous hydrogen sulfide with dual-readout signals

Hydrogen sulfide (H₂S) is a vital endogenous gas signal molecule undertaking numerous physiological functions such as biological regulation and cytoprotection. Herein, we developed an electrochemical (EC) and photothermal (PT) dual-readout signals method for H₂S detection based on a novel biosynthesis-mediated Ni-Fe-Cu LDH-to-sulfides transformation strategy. Interestingly, the Cu²⁺-based Ni-Fe LDH (Ni-Fe-Cu LDH) can act as the Cu²⁺ source to react with H₂S, resulting in the in-situ generation of Cu_xS on Ni-Fe-Cu LDH surfaces. Because of the EC signal and intrinsic near-infrared (NIR) PT conversion ability of Cu_xS under 808 nm laser irradiation, the obtained Cu_xS@Ni-Fe-Cu LDH is applied to stimulate EC signal and temperature readout. By this means, a dual-readout signal mode is established for H₂S detection. Under the optimum conditions, this combination of EC and PT methods displays a wide linear range for H₂S to 0.1 μM-90 μM and 50 μM-400 μM, respectively, with a low detection limit of 0.09 μM. In addition, the practicality of Ni-Fe-Cu LDH is verified by determination of endogenous H₂S in living cells. This work not only provides a promising application for H₂S diagnosis but also exhibits the new characteristic of Ni-Fe-Cu LDH nanomaterials as signal transduction tags.