Bioanalytical Measurements Enabled by Surface-Enhanced Raman Scattering (SERS) Probes

SERS-Encoded Nanoprobes Based on Silver-Coated Gold Nanorods for Cell Sorting

Optically-encoded probes have great potential for applications in the fields of biosensing and imaging. By employing specific encoding methods, these probes enable the detection of multiple target molecules and high-resolution imaging within the same sample. Among the various encoding methods, surface-enhanced Raman scattering (SERS) spectral encoding stands out due to its extremely narrow linewidth. Compared to fluorescence spectral encoding, SERS encoding significantly reduces crosstalk between adjacent peaks, thereby achieving a larger encoding capacity and enabling multi-channel parallel analysis. This article presents the design and construction of two novel sets of SERS-encoded probes based on noble metal core-shell nanostructures. Two different encoding strategies are successfully applied to encode the SERS spectra of the probes: 1D encoding based on the wavenumber of characteristic peaks in the SERS spectrum, and 2D encoding combining both wavenumber and intensity of characteristic peaks in the SERS spectrum. In addition, this study also demonstrates the potential application of 1D encoded probes in cell sorting. These studies verify the feasibility of applying these two encoding methods to SERS core-shell probes and provide new insights into the construction of optically encoded probes.

Biofabrication and Monitoring of a 3D Printed Skin Model for Melanoma

There is an unmet need for in vitro cancer models that emulate the complexity of human tissues. 3D-printed solid tumor micromodels based on decellularized extracellular matrices (dECMs) recreate the biomolecule-rich matrix of native tissue. Herein a 3D in vitro metastatic melanoma model that is amenable for drug screening purposes and recapitulates features of both the tumor and the skin microenvironment is described. Epidermal, basement membrane, and dermal biocompatible inks are prepared by means of combined chemical, mechanical, and enzymatic processes. Bioink printability is confirmed by rheological assessment and bioprinting, and bioinks are subsequently combined with melanoma cells and dermal fibroblasts to build complex 3D melanoma models. Cells are tracked by confocal microscopy and surface-enhanced Raman spectroscopy (SERS) mapping. Printed dECMs and cell tracking allow modeling of the initial steps of metastatic disease, and may be used to better understand melanoma cell behavior and response to drugs.

A CRISPR/Cas12a-powered gold/nickel foam surface-enhanced Raman spectroscopy biosensor for nucleic acid specific detection in foods

Food is a necessary source of energy, but it also serves as a pathway for transmitting infectious pathogens, making food safety a matter of great concern. Rapid, accurate, and specific detection methods for foodborne viruses are crucial. Surface-Enhanced Raman Scattering (SERS), due to its superior sensitivity and characteristic fingerprint spectra, holds enormous potential. However, due to the limitations of SERS, it requires specific conditions to achieve specificity. In order to enhance the specificity and accuracy of nucleic acid detection based on SERS, we have developed a CRISPR-Cas12a-mediated SERS technique to identify target DNA, harnessing the targeting recognition capability of CRISPR-Cas12a and ultra-sensitive SERS tags and successfully addressing SERS' lack of specific detection capability. This system includes a gold/nickel foam substrate (Au-NFs) and a reporter (ssDNA-ROX). The phenomenon of colloidal gold/silver nano-aggregation due to magnesium ions, which is commonly encountered in CRISPR-SERS, was simultaneously solved using AuNFs. The qualitative and quantitative analysis of target DNA in drinking water was performed by monitoring the intensity change of ROX Raman reporter molecules. The results showed that the sensor detected DNA within 30 min and the limit of detection (LOD) was 8.23 fM. This is expected to become one of the alternative methods for nucleic acid detection for its rapid detection and high specificity.

Designing SERS nanotags for profiling overexpressed surface markers on single cancer cells: A review

This review focuses on the chemical design and the use of Surface-Enhanced Raman Scattering (SERS)-active nanotags for measuring surface markers that can be overexpressed at the surface of single cancer cells. Indeed, providing analytical tools with true single-cell measurements capabilities is capital, especially since cancer research is increasingly leaning toward single-cell analysis, either to guide treatment decisions or to understand complex tumor behaviour including the single-cell heterogeneity and the appearance of treatment resistance. Over the past two decades, SERS nanotags have triggered significant interest in the scientific community owing their advantages over fluorescent tags, mainly because SERS nanotags resist photobleaching and exhibit sharper signal bands, which reduces possible spectral overlap and enables the discrimination between the SERS signals and the autofluorescence background from the sample itself. The extensive efforts invested in harnessing SERS nanotags for biomedical purposes, particularly in cancer research, highlight their potential as the next generation of optical labels for single-cell studies. The review unfolds in two main parts. The first part focuses on the structure of SERS nanotags, detailing their chemical composition and the role of each building block of the tags. The second part explores applications in measuring overexpressed surface markers on single-cells. The latter encompasses studies using single nanotags, multiplexed measurements, quantitative information extraction, monitoring treatment responses, and integrating phenotype measurements with SERS nanotags on single cells isolated from complex biological matrices. This comprehensive review anticipates SERS nanotags to persist as a pivotal technology in advancing single-cell analytical methods, particularly in the context of cancer research and personalized medicine.

New insights into the surface Enhanced Raman Scattering (SERS) response of adenine using chemometrics

The SERS response of adenine is one of the most studied, due to its outstanding exaltation. However, the spectra obtained strongly differ according to the experimental conditions and still remain not well understood. To be able to search for the presence of this molecule in complex environments, it is essential to better understand the SERS response of adenine alone. After a brief presentation of the literature on the subject, we present results suggesting that the experimental spectra would result from the overlap of different spectroscopic signatures, that may probably be due to different non-covalent interactions or different electromagnetic fields experienced by adenine molecules. An independent component analysis is reported. Our results underline the difficulty to precisely analyze the experimental data, the need to continue this research and to constitute data banks that would allow comparing the spectra obtained in different laboratories according to the experimental conditions.

Colloidal surface-enhanced Raman spectroscopic study of grouper epidermal mucus using acidified sodium sulphate as the aggregating agent

Fish epidermal mucus is an important reservoir of antipathogenic compounds which serves as the first line of the immune defence. Despite its significant role in the physiology and health of fish, detailed profiling of fish epidermal mucus has yet to be explored. Therefore, this study investigates a label-free colloidal surface-enhanced Raman spectroscopic (SERS) method for profiling grouper mucus. Gold nanoparticles were first synthesised using the standard citrate reduction and characterised using ultraviolet-visible spectroscopy, transmission electron microscopy and dynamic light scattering. The influence of acidified sodium sulphate (Na2SO4) at pH 3 as the aggregating agent on the enhancement of the SERS spectrum of different analyte samples including rhodamine 6G (R6G) dye, lysozyme solution and hybrid grouper (Epinephelus fuscoguttatus × Epinephelus lanceolatus) mucus was observed. Based on the results, an optimal Na2SO4 concentration of 1 M was recorded to achieve the highest enhancement of the SERS signal for R6G and grouper mucus, while the optimal concentration for lysozyme was 0.1 M. The results indicated a higher degree of aggregation induced by lysozyme than R6G and grouper mucus. A few overlapping peaks of the SERS spectra of lysozyme and grouper mucus made it possible to confirm the presence of lysozyme as potential biomarkers.

Determination of Dicofol in Tea Using Surface-Enhanced Raman Spectroscopy Coupled Chemometrics

Dicofol is a highly toxic residual pesticide in tea, which seriously endangers human health. A method for detecting dicofol in tea by combining stoichiometry with surface-enhanced Raman spectroscopy (SERS) technology was proposed in this study. AuNPs were prepared, and silver shells were grown on the surface of AuNPs to obtain core-shell Au@AgNPs. Then, the core-shell Au@AgNPs were attached to the surface of a PDMS membrane by physical deposition to obtain a Au@AgNPs/PDMS substrate. The limit of detection (LOD) of this substrate for 4-ATP is as low as 0.28 × 10^-11 mol/L, and the LOD of dicofol in tea is 0.32 ng/kg, showing high sensitivity. By comparing the modeling effects of preprocessing and variable selection algorithms, it is concluded that the modeling effect of Savitzky-Golay combined with competitive adaptive reweighted sampling-partial least squares regression is the best (Rp = 0.9964, RPD = 10.6145). SERS technology combined with stoichiometry is expected to rapidly detect dicofol in tea without labels.

Versatile flexible SERS substrate for in situ detection of contaminants in water and fruits based on Ag NPs decorated wrinkled PDMS film

Flexible surface-enhanced Raman spectroscopy (SERS) substrate has attracted great attention due to its convenient sampling and on-site monitoring capability. However, it is still challenging to fabricate a versatile flexible SERS substrate, which can be used for in situ detection of analytes either in water or on irregular solid surfaces. Here, we report a flexible and transparent SERS substrate based on a wrinkled polydimethylsiloxane (PDMS) film obtained by transferring corrugated structures on the aluminium/polystyrene bilayer film, onto which silver nanoparticles (Ag NPs) are deposited by thermal evaporation. The as-fabricated SERS substrate exhibits a high enhancement factor (∼1.19×10⁵), good signal uniformity (RSD of 6.27%), and excellent batch-to-batch reproducibility (RSD of 7.3%) for rhodamine 6 G. In addition, the Ag NPs@W-PDMS film can maintain high detection sensitivity even after mechanical deformations of bending or torsion for 100 cycles. More importantly, being flexible, transparent, and light, the Ag NPs@W-PDMS film can both float on the water surface and conformally contact with the curved surface for in situ detection. The malachite green in aqueous environment and on apple peel can be easily detected down to 10^-6 M with a portable Raman spectrometer. Therefore, it is expected that such a versatile flexible SERS substrate has great potential in on-site, in situ contaminant monitoring for realistic applications.

Plant nanobionics: Fortifying food security via engineered plant productivity

The world's human population is increasing exponentially, increasing the demand for high-quality food sources. As a result, there is a major global concern over hunger and malnutrition in developing countries with limited food resources. To address this issue, researchers worldwide must focus on developing improved crop varieties with greater productivity to overcome hunger. However, conventional crop breeding methods require extensive periods to develop new varieties with desirable traits. To tackle this challenge, an innovative approach termed plant nanobionics introduces nanomaterials (NMs) into cell organelles to enhance or modify plant function and thus crop productivity and yield. A comprehensive review of nanomaterials affect crop yield is needed to guide nanotechnology research. This article critically reviews nanotechnology applications for engineering plant productivity, seed germination, crop growth, enhancing photosynthesis, and improving crop yield and quality, and discusses nanobionic approaches such as smart drug delivery systems and plant nanobiosensors. Moreover, the review describes NM classification and synthesis and human health-related and plant toxicity hazards. Our findings suggest that nanotechnology application in agricultural production could significantly increase crop yields to alleviate global hunger pressures. However, the environmental risks associated with NMs should be investigated thoroughly before their widespread adoption in agriculture.

Design and Synthesis of SERS Materials for In Vivo Molecular Imaging and Biosensing

Surface-enhanced Raman scattering (SERS) is a feasible and ultra-sensitive method for biomedical imaging and disease diagnosis. SERS is widely applied to in vivo imaging due to the development of functional nanoparticles encoded by Raman active molecules (SERS nanoprobes) and improvements in instruments. Herein, the recent developments in SERS active materials and their in vivo imaging and biosensing applications are overviewed. Various SERS substrates that have been successfully used for in vivo imaging are described. Then, the applications of SERS imaging in cancer detection and in vivo intraoperative guidance are summarized. The role of highly sensitive SERS biosensors in guiding the detection and prevention of diseases is discussed in detail. Moreover, its role in the identification and resection of microtumors and as a diagnostic and therapeutic platform is also reviewed. Finally, the progress and challenges associated with SERS active materials, equipment, and clinical translation are described. The present evidence suggests that SERS could be applied in clinical practice in the future.

SERS Assays Based on Electrospun Nanofibers: Preparation and Analytical Applications

Surface-enhanced Raman spectroscopy (SERS) is a powerful tool and an up-to-date method of analytical chemistry due to its high sensitivity and fingerprint recognition capabilities. Nowadays SERS due to its label-free detection capabilities is being actively developed in medical fields, for example in the analysis of biologically important substances in different matrixes, for potential on-site detection of toxic substances, food safety, and so on. To get the SERS signal, it is necessary the presence of plasmonic nanostructures in the SERS substrates. Electrospun nanofibers have been an attractive alternative to SERS-platforms due to the diversity of advantages, including ease of preparation, structure flexibility, and others. In this review, we summarized the methods of plasmonic nanostructures incorporating substrate based on electrospun nanofibers. Also, the analytical application of SERS-active electrospun nanofibers with embedded nanostructures focused on biologically significant molecules is observed in detail. Finally, the future outlook in the application of these substrates in bioanalysis as the most promising area in analytical chemistry is presented.

Toward Quantitative Surface-Enhanced Raman Scattering with Plasmonic Nanoparticles: Multiscale View on Heterogeneities in Particle Morphology, Surface Modification, Interface, and Analytical Protocols

Surface-enhanced Raman scattering (SERS) provides significantly enhanced Raman scattering signals from molecules adsorbed on plasmonic nanostructures, as well as the molecules' vibrational fingerprints. Plasmonic nanoparticle systems are particularly powerful for SERS substrates as they provide a wide range of structural features and plasmonic couplings to boost the enhancement, often up to >10⁸-10¹⁰. Nevertheless, nanoparticle-based SERS is not widely utilized as a means for reliable quantitative measurement of molecules largely due to limited controllability, uniformity, and scalability of plasmonic nanoparticles, poor molecular modification chemistry, and a lack of widely used analytical protocols for SERS. Furthermore, multiscale issues with plasmonic nanoparticle systems that range from atomic and molecular scales to assembled nanostructure scale are difficult to simultaneously control, analyze, and address. In this perspective, we introduce and discuss the design principles and key issues in preparing SERS nanoparticle substrates and the recent studies on the uniform and controllable synthesis and newly emerging machine learning-based analysis of plasmonic nanoparticle systems for quantitative SERS. Specifically, the multiscale point of view with plasmonic nanoparticle systems toward quantitative SERS is provided throughout this perspective. Furthermore, issues with correctly estimating and comparing SERS enhancement factors are discussed, and newly emerging statistical and artificial intelligence approaches for analyzing complex SERS systems are introduced and scrutinized to address challenges that cannot be fully resolved through synthetic improvements.

Design of Ag/TiO2/Ag Composite Nano-Array Structure with Adjustable SERS-Activity

How to fabricate large area controllable surface-enhanced Raman scattering (SERS) active nanostructure substrates has always been one of the important issues in the development of nanostructure devices. In this paper, nano-etching technology and magnetron sputtering technology are combined to prepare nanostructure substrate with evolvable structure, and Ag/TiO₂/Ag composites are introduced into the evolvable composite structure. The activity of SERS is further enhanced by the combination of TiO₂ and Ag and the electron transfer characteristics of TiO₂ itself. Deposition, plasma etching, and transfer are carried out on self-assembled 200 nm polystyrene (PS) colloidal sphere arrays. Due to the shadow effect between colloidal spheres and the size of metal particles introduced by deposition, a series of Ag/TiO₂/Ag nanostructure arrays with adjustable nanostructure substrates such as nano-cap (NC), nano cap-star (NCS), and nano particle-disk (NPD) can be obtained. These nanoarrays with rough surfaces and different evolutionary structures can uninterruptedly regulate optical plasmon resonance and reconstruct SERS hotspots over a large range, which has potential application value in surface science, chemical detection, nanometer photonics, and so on.

Optoplasmonic MOFs film for SERS detection

Optoplasmonic hybrid structures composed of photonic and plasmonic elements with excellent optical properties are of great significance for the development of surface-enhanced Raman spectroscopy (SERS) substrates. In this work, the optoplasmonic hybrid structure is composed of SiO₂ microsphere and two-dimensional (2D) plasmonic- metal organic frameworks (MOF) film. Among them, the 2D plasmonic-MOF film is prepared from silver nanoparticles encapsulated by zeolitic imidazole acid framework (AgNP@ZIF-8) by self-assembly method. This optoplasmonic hybrid structure with gas adsorption properties could be used as a SERS substrate for 4-Mercaptophenol (4-MP) gas detection. Experimental data show that this substrate is dependent on the thickness of the ZIF shell and the size of the SiO₂ microspheres. In addition, it is confirmed by the electromagnetic field simulation of finite-difference time-domain method (FDTD). The optoplasmonic hybrid microstructures exhibit good uniformity for detection of 4-MP gas molecules. This work not only broadens the understanding of our optoplasmonic hybrid structure, but also has broad application prospects in SERS and gas sensing related fields.

Potential of fluorescent nanoprobe in diagnosis and treatment of Alzheimer's disease

Alzheimer's disease (AD) is well known for its insidious nature, slow progression and high incidence as a neurodegenerative disease. In the past, diagnosis of AD mainly depended on analysis of a patient's cognitive ability and behavior. Without a unified standard for analysis methods, this is prone to produce incorrect diagnoses. Currently, definitive diagnosis mainly relies on histopathological examination. Because of the advantages of precision, noninvasiveness, low toxicity and high spatiotemporal resolution, fluorescent nanoprobes are suitable for the early diagnosis of AD. This review summarizes the research progress of different kinds of fluorescent nanoprobes for AD diagnosis and therapy in recent years and provides an outlook on the development prospects of fluorescent nanoprobes.

Label-Free Detection of DNA via Surface-Enhanced Raman Spectroscopy Using Au@Ag Nanoparticles

DNA is a building block of life; surface-enhanced Raman spectroscopy (SERS) has been broadly applied in the detection of biomolecules but there are challenges in obtaining high-quality DNA SERS signals under non-destructive conditions. Here, we developed a novel label-free approach for DNA detection based on SERS, in which the Au@AgNPs core-shell structure was selected as the enhancement substrate, which not only solved the problem of the weak enhancement effect of gold nanoparticles but also overcame the disadvantage of the inhomogeneous shapes of silver nanoparticles, thereby improving the sensitivity and reproducibility of the SERS signals of DNA molecules. The method obtained SERS signals for four DNA bases (A, C, G, and T) without destroying the structure, then further detected and qualified different specific structures of DNA molecules. These results promote the application of SERS technology in the field of biomolecular detection.

Flexible surface-enhanced Raman scatting substrates: recent advances in their principles, design strategies, diversified material selections and applications

Surface-enhanced Raman scattering (SERS) is widely used as a powerful analytical technology in cutting-edge areas such as food safety, biology, chemistry, and medical diagnosis, providing ultra-fast, ultra-sensitive, nondestructive characterization and achieving ultra-high detection sensitivity even down to the single-molecule level. Development of Raman spectroscopy is strongly dependent on high-performance SERS substrates, which have long evolved from the early days of rough metal electrodes to periodic nanopatterned arrays building on solid supporting substrates. For rigid SERS substrates, however, their applications are restricted by sophisticated pretreatments for detecting solid samples with non-planar surfaces. It is therefore essential to reassert the principles in constructing flexible SERS substrates. Herein, we comprehensively review the state-of-the-art in understanding, preparing and using flexible SERS. The basic mechanisms behind the flexible SERS are briefly outlined, typical design strategies are highlighted and diversified selection of materials in preparing flexible SERS substrates are reviewed. Then the recent achievements of various interdisciplinary applications based on flexible SERS substrates are summarized. Finally, the challenges and perspectives for future evolution of flexible SERS and their applications are demonstrated. We propose new research directions focused on stimulating the real potential of SERS as an advanced analytical technique for commercialization.

Ex vivo confocal Raman microspectroscopy of porcine dura mater supported by optical clearing

The effect of tissue optical clearing (TOC) to increase the probing depth and observe in-depth structure of the ex vivo porcine dura mater was studied by confocal Raman microspectroscopy (CRM). Raman intensities were significantly increased at the depth of 250 μm for all collagen bands after treatment with glycerol. The influence of glycerol on collagen hydration was also investigated. The results indicate that the process of TOC can be divided into three main steps. The first one is a fast process of tissue dehydration accompanied by collagen shrinkage while the second relatively slow process is related to the glycerol penetration into the interfibrillar space of collagen combined with swelling of tissue. The third step is collagen dissociation caused by the high concentration of glycerol. To the best of our knowledge, this study is the first example to introduce the TOC technique in assisting CRM of ex vivo dura mater in-depth probing.

Process optimization for the synthesis of functionalized Au@AgNPs for specific detection of Hg2+ based on quality by design (QbD)

The current study highlights the advantages of using the quality by design (QbD) approach to synthesise and optimize SERS substrates for the detection of Hg²⁺. Considering that the performance of Au@AgNPs is affected by many factors, Plackett–Burman (PB) experimental design was used to determine the critical process parameters (CPPs) for evaluating the performance of Au@AgNPs. The quantitative relationships between the CPPs and the critical quality attributes (CQAs) were assessed by Box-Behnken Design (BBD). The optimal design space for Au@AgNPs was calculated via a Monte Carlo algorithm. Finally, detection of Hg²⁺ in the range of 1 ∼ 100 ng mL⁻¹ (R² = 0.9891) was achieved by SERS in combination with 4,4-bipyridine (Dpy) as signal molecules. The recoveries for licorice ranged from 83.53% to 92.96%. Specificity and practicality studies indicated that the method based on the QbD concept and design space not only met the optimal performance of Au@AgNPs but also improved the rapid detection of Hg²⁺ in Chinese medicine samples.

The current study highlights the advantages of using the quality by design (QbD) approach to synthesise and optimize SERS substrates for the detection of Hg²⁺.

Recent advances in antibiotic resistance diagnosis using SERS: focus on the “Big 5” challenges

SERS for antibiotic resistance diagnosis.

A new gold nanoflower sol SERS method for trace iodine ion based on catalytic amplification

As one of the essential trace elements in metabolism, iodine is crucial to maintain the normal physiological functions. Therefore, based on health and environmental protection, it is very important to realize sensitive detection of iodide ion. Herein, we developed a simple, rapid and sensitive method for the determination of iodide ion. Trypsin was used as an ideal template for the synthesis of gold nanoflower sol (AuNFs) with anisotropic surface structure and good stability. It exhibits highly active surface enhanced Raman scattering (SERS) effect and can be used as facile SERS sol substrate. The TMBox generated by the catalytic oxidation reaction of TMB-chloramine T-iodide ion is used as the SERS probe. The enhanced SERS signal intensity is linearly related to the iodide ion with high sensitivity. In addition, TMB has fluorescence effect, and the colored TMBox can produce RRS signal due to polymerization. Based on this, a quad-mode detection method of SERS, RRS, fluorescence and colorimetry for quantitative detection of trace iodide ions was established, and this method can be applied to the detection of iodide ions in natural water and drinking water.

SERRS Detection on Silver Nanoparticles Supported on Acid-Treated Melamine-Resin Microspheres

Melamine-resin microspheres were synthesized at a pH of 4.0 for 20 min and used as silver nanoparticle (AgNP) carriers for surface enhanced resonant Raman scattering (SERRS) detection. An acetic acid–treatment reaction was introduced into the fabrication of the final substrate. The SERRS performance of the substrate was effectively optimized by regulating excess formaldehyde and experimental parameters, such as acidity, number of treatments and reaction temperature in the acid-treatment reaction. Based on the SERRS detection, it was declared that a trace amount of oligomers with a certain degree of polymerization is necessary for the construction of SERRS hotspots. In addition, it is important to remove excess oligomers with reference to the synthetic reaction of the polymer materials, given the special role of oligomers and the wide application of polymer materials in SERRS detection.

In Search of Spectroscopic Signatures of Periodontitis: A SERS-Based Magnetomicrofluidic Sensor for Detection of Porphyromonas gingivalis and Aggregatibacter actinomycetemcomitans

Recently, Porphyromonas gingivalis, the keystone pathogen implicated in the development of gum disease (periodontitis), was detected in the brains of Alzheimer’s disease patients, opening up a fascinating possibility that it is also involved in the pathobiology of this neurodegenerative illness. To verify this hypothesis, an unbiased, specific, and sensitive method to detect this pathogen in biological specimens is needed. To this end, our interdisciplinary studies demonstrate that P. gingivalis can be easily identified by surface-enhanced Raman scattering (SERS). Moreover, based on SERS measurements, P. gingivalis can be distinguished from another common periodontal pathogen, Aggregatibacter actinomycetemcomitans, and also from ubiquitous oral Streptococcus spp. The results were confirmed by principal component analysis (PCA). Furthermore, we have shown that different P. gingivalis and A. actinomycetemcomitans strains can easily adsorb to silver-coated magnetic nanoparticles (Fe₂O₃@AgNPs). Thus, it is possible to magnetically separate investigated bacteria from other components of a specimen using the microfluidic chip. To obtain additional enhancement of the Raman signal, the NPs adsorbed to bacterial cells were magnetically attracted to the Si/Ag SERS platform. Afterward, the SERS spectra could be recorded. Such a time-saving procedure can be very helpful in rapid medical diagnostics and thus in starting the appropriate pharmacological therapy to prevent the development of periodontitis and associated comorbidities, e.g., Alzheimerʼs disease.

Spatially Resolved Analytical Chemistry in Intact, Living Tissues

Tissues are an exciting frontier for bioanalytical chemistry, one in which spatial distribution is just as important as total content. Intact tissue preserves the native cellular and molecular organization and the cell-cell contacts found in vivo. Live tissue, in particular, offers the potential to analyze dynamic events in a spatially resolved manner, leading to fundamental biological insights and translational discoveries. In this Perspective, we provide a tutorial on the four fundamental challenges for the bioanalytical chemist working in living tissue samples as well as best practices for mitigating them. The challenges include (i) the complexity of the sample matrix, which contributes myriad interfering species and causes nonspecific binding of reagents; (ii) hindered delivery and mixing; (iii) the need to maintain physiological conditions; and (iv) tissue reactivity. This framework is relevant to a variety of methods for spatially resolved chemical analysis, including optical imaging, inserted sensors and probes such as electrodes, and surface analyses such as sensing arrays. The discussion focuses primarily on ex vivo tissues, though many considerations are relevant in vivo as well. Our goal is to convey the exciting potential of analytical chemistry to contribute to understanding the functions of live, intact tissues.

Nano-substructured plasmonic pore arrays: a robust, low cost route to reproducible hierarchical structures extended across macroscopic dimensions

Plasmonic nanostructures are important across diverse applications from sensing to renewable energy. Periodic porous array structures are particularly attractive because such topography offers a means to encapsulate or capture solution phase species and combines both propagating and localised plasmonic modes offering versatile addressability. However, in analytical spectroscopic applications, periodic pore arrays have typically reported weaker plasmonic signal enhancement compared to particulate structures. This may be addressed by introducing additional nano-structuring into the array to promote plasmonic coupling that promotes electric field-enhancement, whilst retaining pore structure. Introducing nanoparticle structures into the pores is a useful means to promote such coupling. However, current approaches rely on either expensive top-down methods or on bottom-up methods that yield random particle placement and distribution. This report describes a low cost, top-down technique for preparation of nano-sub-structured plasmonic pore arrays in a highly reproducible manner that can be applied to build arrays extending over macroscopic areas of mm2 to cm2. The method exploits oxygen plasma etching, under controlled conditions, of the cavity encapsulated templating polystyrene (PS) spheres used to create the periodic array. Subsequent metal deposition leads to reproducible nano-structuring within the wells of the pore array, coined in-cavity nanoparticles (icNPs). This approach was demonstrated across periodic arrays with pore/sphere diameters ranging from 500 nm to 3 μm and reliably improved the plasmonic properties of the substrate across all array dimensions compared to analogous periodic arrays without the nano-structuring. The enhancement factors achieved for metal enhanced emission and surface enhanced Raman spectroscopy depended on the substrate dimensions, with the best performance achieved for nanostructured 2 μm diameter pore arrays, where a more than 104 improvement over Surface Enhanced Raman Spectroscopy (SERS) and 200-fold improvement over Metal Enhanced Fluorescence (MEF) were observed for these substrates compared with analogous unmodified pore arrays. The experiments were supported by Finite-Difference Time-Domain (FDTD) calculations used to simulate the electric field distribution as a function of pore nano-structuring.

Through-bottle whisky sensing and classification using Raman spectroscopy in an axicon-based backscattering configuration

Non-intrusive detection systems have the potential to characterise materials through various transparent glass and plastic containers. Food and drink adulteration is increasingly problematic, representing a serious health risk as well as an economic issue. This is of particular concern for alcoholic spirits such as Scotch whisky which are often targeted for fraudulent activity. We have developed a Raman system with a novel geometry of excitation and collection, exploiting the beam propagation from an axicon lens, which results in an annular beam at the bottle surface before focusing within the sample. This facilitates the efficient acquisition of Raman signals from the alcoholic spirit contained inside the bottle, while avoiding the collection of auto-fluorescence signals generated by the bottle wall. Therefore, this technique provides a way of non-destructive and non-contact detection to precisely analyse the contents without the requirement to open the bottle.

Promoting DNA Adsorption by Acids and Polyvalent Cations: Beyond Charge Screening

Adsorbing DNA oligonucleotides onto nanoparticles is the first step in developing DNA-based biosensors, drug delivery systems, and smart materials. Since DNA is a polyanion, it is repelled by negatively charged nanoparticles, which constitute the majority of commonly used nanomaterials. Adding salt such as NaCl to screen charge repulsion is a standard method of promoting DNA adsorption. However, Na⁺ does not supply additional attractive forces. In addition, adding a high concentration of NaCl can cause the aggregation of nanomaterials. In this feature article, we mainly summarize the methods developed in our laboratory to promote DNA adsorption by lowering the pH and by adding polyvalent metal ions, especially transition-metal ions. Various materials including noble metals (gold, silver, and platinum), 2D materials (graphene oxide, MoS₂, WS₂, and MXene), polydopamine, and several metal oxides are discussed. In general, low pH can protonate DNA bases and nanoparticle surfaces, reducing charge repulsion and even leading to attraction, although DNA folding at low pH can sometimes be detrimental to adsorption. Polyvalent metal ions can bridge additional interactions to achieve otherwise impossible adsorption. On the basis of the current understanding, a few future research directions are proposed to further improve DNA adsorption.

Rapid detection of ziram residues in apple and pear fruits by SERS based on octanethiol functionalized bimetallic core-shell nanoparticles

Existing approaches for the screening of unsafe materials in food matrices are time-consuming, tiresome and destructive in nature. Therefore, in the current study, a surface-enhanced Raman spectroscopy (SERS) method based on octanethiol-functionalized core-shell nanoparticles (Oct/Au@AgNPs) was established for rapid detection of ziram in apple and pear fruits. The morphology of substrate was evaluated using high-resolution TEM images and superimposed HAADF-STEM-EDS elemental mapping images, which confirmed that Au@AgNPs having gold (Au) core size of 28 nm in diameter and silver (Ag) shell of 5.5 nm in thickness were successfully grafted with octanethiol. The SERS method with the sensitive nanoparticles could detect ziram of up to 0.015 and 0.016 ppm in apple and pear with high coefficients of determination (R²) of 0.9987 and 0.9993, respectively. Furthermore, satisfactory recoveries (80-106%) were also accomplished for the fungicide in real samples. This work demonstrated that the functionalized silver-coated gold nanoparticles were easy to prepare and could be used as sensitive SERS platforms for monitoring of other agrochemicals in foods.

Good's buffers have various affinities to gold nanoparticles regulating fluorescent and colorimetric DNA sensing

Citrate-capped gold nanoparticles (AuNPs) are highly important for sensing, drug delivery, and materials design. Many of their reactions take place in various buffers such as phosphate and Good's buffers. The effect of buffer on the surface properties of AuNPs is critical, yet this topic has not been systematically explored. Herein, we used halides such as fluoride, chloride, and bromide as probes to measure the relative adsorption strength of six common buffers. Among them, HEPES had the highest adsorption affinity, while MES, citrate and phosphate were weakly adsorbed with an overall ranking of HEPES > PIPES > MOPS > MES > citrate, phosphate. The adsorption strength was reflected from the inhibited adsorption of DNA and from the displacement of pre-adsorbed DNA. This conclusion is also supported by surface enhanced Raman spectroscopy. Furthermore, some buffer molecules did not get adsorbed instantaneously, and the MOPS buffer took up to 1 h to reach equilibrium. Finally, a classic label-free AuNP-based colorimetric sensor was tested. Its sensitivity increased by 15.7-fold when performed in a MES buffer compared to a HEPES buffer. This study has articulated the importance of buffer for AuNP-based studies and how it can improve sensors and yield more reproducible experimental systems.

Aside from maintaining pH, Good's buffers can be adsorbed on gold nanoparticles with different affinities, affecting the stability and its fluorescent and colorimetric sensing performance.

One-step synthesis of gold nanoflowers of tunable size and absorption wavelength in the red & deep red range for SERS spectroscopy

We describe a novel protocol for a one-step, seed-less, organic solvent- and surfactant-free synthesis of optically dense aqueous colloids of gold nanoflowers (AuNF), with tunable absorption wavelength between 620 and 800 nm. We demonstrate that simple variation of the ratio of two reagents allows the plasmonic band position to be tuned to any desired wavelength ± 5 nm, namely to those of the laser sources commonly used for SERS spectroscopy. The AuNF size distribution was sufficiently narrow, comparable to that known with seed-mediated synthesis. The AuNF have been validated as efficient aggregation-free substrates for surface-enhanced Raman scattering (SERS) spectroscopy using two common fluorescent dyes, Nile Blue and Crystal Violet, both thiol-free. Their fluorescence was quenched and SERS signal intensity was a linear function of the dye concentration, from nanomolar to micromolar range. Easy to prepare and to use, these AuNF appear as a particularly user-friendly and efficient way to obtain plasmonic substrates for SERS in the red and deep red spectral range.

DNA detection by SERS: hybridisation parameters and the potential for asymmetric PCR

Addition of complementary DNA induces nanoparticle assembly and SERS response without requirement for further preanalytical steps.

A look into the use of Raman spectroscopy for brain and breast cancer diagnostics: linear and non-linear optics in cancer research as a gateway to tumor cell identity

Introduction: Currently, intensely developing of linear and non-linear optical methods for cancer detection provides a valuable tool to improve sensitivity and specificity. One of the main reasons for insufficient progress in cancer diagnostics is related to the fact that most cancer types are not only heterogeneous in their genetic composition but also reside in varying microenvironments and interact with different cell types. Until now, no technology has been fully proven for effective detecting of invasive cancer, which infiltrating the extracellular matrix.Areas covered: This review investigates the current status of Raman spectroscopy and Raman imaging for brain and breast cancer diagnostics. Moreover, the review provides a comprehensive overview of the applicability of atomic force microscopy (AFM), linear and non-linear optics in cancer research as a gateway to tumor cell identity.Expert commentary: A combination of linear and non-linear optics, particularly Raman-driven methods, has many additional advantages to identify alterations in cancer cells that are crucial for their proliferation and that distinguish them from normal cells.

Intracellular and Cellular Detection by SERS-Active Plasmonic Nanostructures

Surface-enhanced Raman scattering (SERS), with greatly amplified fingerprint spectra, holds great promise in biochemical and biomedical research. In particular, the possibility of exciting a library of SERS probes and differentially detecting them simultaneously has stimulated widespread interest in multiplexed biodetection. Herein, recent progress in developing SERS-active plasmonic nanostructures for cellular and intracellular detection is summarized. The development of nanosensors with tailored plasmonic and multifunctional properties for profiling molecular and pathological processes is highlighted. Future challenges towards the routine use of SERS technology in quantitative bioanalysis and clinical diagnostics are further discussed.

A Review on Surface-Enhanced Raman Scattering

Surface-enhanced Raman scattering (SERS) has become a powerful tool in chemical, material and life sciences, owing to its intrinsic features (i.e., fingerprint recognition capabilities and high sensitivity) and to the technological advancements that have lowered the cost of the instruments and improved their sensitivity and user-friendliness. We provide an overview of the most significant aspects of SERS. First, the phenomena at the basis of the SERS amplification are described. Then, the measurement of the enhancement and the key factors that determine it (the materials, the hot spots, and the analyte-surface distance) are discussed. A section is dedicated to the analysis of the relevant factors for the choice of the excitation wavelength in a SERS experiment. Several types of substrates and fabrication methods are illustrated, along with some examples of the coupling of SERS with separation and capturing techniques. Finally, a representative selection of applications in the biomedical field, with direct and indirect protocols, is provided. We intentionally avoided using a highly technical language and, whenever possible, intuitive explanations of the involved phenomena are provided, in order to make this review suitable to scientists with different degrees of specialization in this field.

Advances in surface-enhanced Raman spectroscopy (SERS) substrates for lipid and protein characterization: sensing and beyond

Surface-enhanced Raman spectroscopy (SERS) has become an essential ultrasensitive analytical tool for biomolecular analysis of small molecules, macromolecular proteins, and even cells. SERS enables label-free, direct detection of molecules through their intrinsic Raman fingerprint. In particular, protein and lipid bilayers are dynamic three-dimensional structures that necessitate label-free methods of characterization. Beyond direct detection and quantitation, the structural information contained in SERS spectra also enables deeper biophysical characterization of biomolecules near metallic surfaces. Therefore, SERS offers enormous potential for such systems, although making measurements in a nonperturbative manner that captures the full range of interactions and activity remains a challenge. Many of these challenges have been overcome through advances in SERS substrate development, which have expanded the applications and targets of SERS for direct biomolecular quantitation and biophysical characterization. In this review, we will first discuss different categories of SERS substrates including solution-phase, solid-supported, tip-enhanced Raman spectroscopy (TERS), and single-molecule substrates for biomolecular analysis. We then discuss detection of protein and biological lipid membranes. Lastly, biophysical insights into proteins, lipids and live cells gained through SERS measurements of these systems are reviewed.

Enhancing Disease Diagnosis: Biomedical Applications of Surface-Enhanced Raman Scattering

Surface-enhanced Raman scattering (SERS) has recently gained increasing attention for the detection of trace quantities of biomolecules due to its excellent molecular specificity, ultrasensitivity, and quantitative multiplex ability. Specific single or multiple biomarkers in complex biological environments generate strong and distinct SERS spectral signals when they are in the vicinity of optically active nanoparticles (NPs). When multivariate chemometrics are applied to decipher underlying biomarker patterns, SERS provides qualitative and quantitative information on the inherent biochemical composition and properties that may be indicative of healthy or diseased states. Moreover, SERS allows for differentiation among many closely-related causative agents of diseases exhibiting similar symptoms to guide early prescription of appropriate, targeted and individualised therapeutics. This review provides an overview of recent progress made by the application of SERS in the diagnosis of cancers, microbial and respiratory infections. It is envisaged that recent technology development will help realise full benefits of SERS to gain deeper insights into the pathological pathways for various diseases at the molecular level.

Recent Progress on Liquid Biopsy Analysis using Surface-Enhanced Raman Spectroscopy

Traditional tissue biopsy is limited in understanding heterogeneity and dynamic evolution of tumors. Instead, analyzing circulating cancer markers in various body fluids, commonly referred to as "liquid biopsy", has recently attracted remarkable interest for their great potential to be applied in non-invasive early cancer screening, tumor progression monitoring and therapy response assessment. Among the various approaches developed for liquid biopsy analysis, surface-enhanced Raman spectroscopy (SERS) has emerged as one of the most powerful techniques based on its high sensitivity, specificity, tremendous spectral multiplexing capacity for simultaneous target detection, as well as its unique capability for obtaining intrinsic fingerprint spectra of biomolecules. In this review, we will first briefly explain the mechanism of SERS, and then introduce recently reported SERS-based techniques for detection of circulating cancer markers including circulating tumor cells, exosomes, circulating tumor DNAs, microRNAs and cancer-related proteins. Cancer diagnosis based on SERS analysis of bulk body fluids will also be included. In the end, we will summarize the "state of the art" technologies of SERS-based platforms and discuss the challenges of translating them into clinical settings.

SERS detection of Clostridium botulinum neurotoxin serotypes A and B in buffer and serum: Towards the development of a biodefense test platform

Botulinum neurotoxins (BoNTs) are classified at a highest degree of threat in biodefense, due largely to their high lethality. With the growing risk of biowarfare, the shortcomings of the gold standard test for these neurotoxins, the mouse bioassay, have underscored the need to develop alternative diagnostic testing strategies. This paper reports on the detection of inactivated Clostridium botulinum neurotoxin serotype A (BoNT-A) and serotype B (BoNT-B), the two most important markers of botulism infection, by using a sandwich immunoassay, gold nanoparticle labels, and surface-enhanced Raman scattering (SERS) within the context of two threat scenarios. The first scenario mimics part of the analysis needed in response to a “white powder” threat by measuring both neurotoxins in phosphate-buffered saline (PBS), a biocompatible solvent often used to recover markers dispersed in a powdered matrix. The second scenario detects the two neurotoxins in spiked human serum to assess the clinical potential of the platform. The overall goal is to develop a test applicable to both scenarios in terms of projections of required levels of detection. We demonstrate the ability to measure BoNT-A and BoNT-B in PBS at a limit of detection (LoD) of 700 pg/mL (5 pM) and 84 pg/mL (0.6 pM), respectively, and in human serum at 1200 pg/mL (8 pM) and 91 pg/mL (0.6 pM), respectively, with a time to result under 24 h. The steps required to transform this platform into an onsite biodefense screening tool that can simultaneously and rapidly detect (<1 h) these and other agents are briefly discussed.

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Raman-based immunoassays can successfully detect botulism neurotoxins.

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Limits of detection for botulism neurotoxins A/B rival those of the mouse bioassay.

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Serum and liquid extracts are suitable sample matrices for the Raman assay.

In vivo multiplex molecular imaging of vascular inflammation using surface-enhanced Raman spectroscopy

Vascular immune-inflammatory responses play a crucial role in the progression and outcome of atherosclerosis. The ability to assess localized inflammation through detection of specific vascular inflammatory biomarkers would significantly improve cardiovascular risk assessment and management; however, no multi-parameter molecular imaging technologies have been established to date. Here, we report the targeted in vivo imaging of multiple vascular biomarkers using antibody-functionalized nanoparticles and surface-enhanced Raman scattering (SERS).

Methods: A series of antibody-functionalized gold nanoprobes (BFNP) were designed containing unique Raman signals in order to detect intercellular adhesion molecule 1 (ICAM-1), vascular cell adhesion molecule 1 (VCAM-1) and P-selectin using SERS.

Results: SERS and BFNP were utilized to detect, discriminate and quantify ICAM-1, VCAM-1 and P-selectin in vitro on human endothelial cells and ex vivo in human coronary arteries. Ultimately, non-invasive multiplex imaging of adhesion molecules in a humanized mouse model was demonstrated in vivo following intravenous injection of the nanoprobes.

Conclusion: This study demonstrates that multiplexed SERS-based molecular imaging can indicate the status of vascular inflammation in vivo and gives promise for SERS as a clinical imaging technique for cardiovascular disease in the future.

Surface-Enhanced Raman Scattering (SERS) in Microbiology: Illumination and Enhancement of the Microbial World

The microbial world forms a huge family of organisms that exhibit the greatest phylogenetic diversity on Earth and thus colonize virtually our entire planet. Due to this diversity and subsequent complex interactions, the vast majority of microorganisms are involved in innumerable natural bioprocesses and contribute an absolutely vital role toward the maintenance of life on Earth, whilst a small minority cause various infectious diseases. The ever-increasing demand for environmental monitoring, sustainable ecosystems, food security, and improved healthcare systems drives the continuous search for inexpensive but reproducible, automated and portable techniques for detection of microbial isolates and understanding their interactions for clinical, environmental, and industrial applications and benefits. Surface-enhanced Raman scattering (SERS) is attracting significant attention for the accurate identification, discrimination and characterization and functional assessment of microbial cells at the single cell level. In this review, we briefly discuss the technological advances in Raman and Fourier transform infrared (FT-IR) instrumentation and their application for the analysis of clinically and industrially relevant microorganisms, biofilms, and biological warfare agents. In addition, we summarize the current trends and future prospects of integrating Raman/SERS-isotopic labeling and cell sorting technologies in parallel, to link genotype-to-phenotype in order to define community function of unculturable microbial cells in mixed microbial communities which possess admirable traits such as detoxification of pollutants and recycling of essential metals.

SERS Sensors: Recent Developments and a Generalized Classification Scheme Based on the Signal Origin

Owing to its extreme sensitivity and easy execution, surface-enhanced Raman spectroscopy (SERS) now finds application for a wide variety of problems requiring sensitive and targeted analyte detection. This widespread application has prompted a proliferation of different SERS-based sensors, suggesting the need for a framework to classify existing methods and guide the development of new techniques. After a brief discussion of the general SERS modalities, we classify SERS-based sensors according the origin of the signal. Three major categories emerge from this analysis: surface-affinity strategy, SERS-tag strategy, and probe-mediated strategy. For each case, we describe the mechanism of action, give selected examples, and point out general misconceptions to aid the construction of new devices. We hope this review serves as a useful tutorial guide and helps readers to better classify and design practical and effective SERS-based sensors.

Development of a SERS strategy to overcome the nanoparticle stabilisation effect in serum-containing samples: Application to the quantification of dopamine in the culture medium of PC-12 cells

The analysis of serum samples by surface-enhanced Raman spectroscopy (SERS) has gained ground over the last few years. However, the stabilisation of colloids by the proteins contained in these samples has restricted their use in common practice, unless antibodies or aptamers are used. Therefore, this work was dedicated to the development of a SERS methodology allowing the analysis of serum samples in a simple and easy-to-implement way. This approach was based on the pre-aggregation of the colloid with a salt solution. Gold nanoparticles (AuNPs) were used as the SERS substrate and, owing to its physiopathological importance, dopamine was chosen as a model to implement the SERS approach. The presence of this neurotransmitter could be determined in the concentration range 0.5-50 ppm (2.64-264 µM) in the culture medium of PC-12 cells, with a R² of 0.9874, and at even lower concentrations (0.25 ppm, 1.32 µM) in another matrix containing fewer proteins. Moreover, the effect of calcium and potassium on the dopamine exocytosis from PC-12 cells was studied. Calcium was shown to have a predominant and dose-dependant effect. Finally, PC-12 cells were exposed to dexamethasone in order to increase their biosynthesis and release of dopamine. This increase was monitored with the developed SERS approach.