Biochemistry strategies for label-free optical sensor biofunctionalization: advances towards real applicability

Label-free localized surface plasmon resonance (LSPR) biosensor, based on Au-Ag NPs embedded in TiO2 matrix, for detection of Ochratoxin-A (OTA) in wine

Ochratoxin-A (OTA) is a widespread foodstuff contaminant with potential carcinogenic effects. Innovative sensing technologies that allow on-site and sensitive food screening can have a significant impact on food and environment safety. A novel and quantitative label-free LSPR-based biosensor was specifically designed for OTA detection, employing a portable LSPR spectroscopy sensing system for efficient on-site and cost-effective analysis. This biosensor is comprised of monoclonal anti-OTA antibodies immobilized on the surface of sputtered Au-Ag nanoparticles embedded in a TiO2 matrix. Under optimized conditions, the LSPR-based biosensor demonstrated a linear dynamic response from 0.05 to 2 ng mL-1, with an estimated limit of detection at 7 pg mL-1, using 55 μL of sample, outperforming commercial ELISA technique in relevant bioanalytical parameters. Sensitivity in OTA detection is crucial because it ensures the accurate identification of low concentrations, which is essential for preventing health risks associated to cumulative ingestion of contaminated food products. The robustness and feasibility of the presented LSPR-based biosensing was tested using spiked white wine, exhibiting a satisfactory recovery of 93 %-113 %, confirming its efficacy in a complex matrix.

Thin-Film-Based Optical Fiber Interferometric Sensor on the Fiber Tip for Endovascular Surgical Procedures

OBJECTIVE

Endovascular surgery requires accurate measurement of parameters such as pressure, temperature, and biomarkers within vessels for real-time tissue response monitoring and ensuring targeted therapeutic interventions. However, the availability of small tip-based sensors capable of precise application, for example, navigating an aneurysm's lumen, is limited. With their capabilities for real-time analysis, flexibility, and biocompatibility, optical fiber sensors (OFS) hold promise in addressing this need. This proof-of-concept study investigates the feasibility of OFS in endovascular surgery scenarios.

METHODS

The sensor is based on a single-mode silica fiber with an interferometric forward-facing thin-film tip. The thin-film materials may be tailored for detecting various physical parameters and, when functionalized, also specific analytes. Materials applied in this sensor are thin metal oxides deposited using magnetron sputtering. A full-scale 3D-printed vascular model was employed to simulate endovascular setup.

RESULTS

The experiments showed the high mechanical robustness of the approach, i.e., the sensor maintained functionality while being maneuvered through the endovascular model. The forward-facing tip remained intact and worked adequately, ensuring consistent and stable readouts. Moreover, the fiber showed sufficient flexibility, with no significant bending loss observed during simulations. Finally, the performance of the OFS in bovine serum samples was assessed. The sensor performed well in serum, and the results suggest that low-concentration serum may be used to reduce nonspecific surface interactions.

CONCLUSION

Overall, this OFS system offers a promising solution for endovascular surgery and other biomedical applications, allowing for precise and on-the-spot analysis.

SIGNIFICANCE

Our study pioneers the feasibility of thin-film interferometric label-free OFS with a forward-facing sensitive area for sensing during endovascular procedures.

Nanoporous Graphene Integrated onto Bimodal Waveguide Biosensors for Detection of C-Reactive Protein

Despite the outstanding progress in photonic sensor devices, a major limitation for its application as label-free biosensors for biomedical analysis lies in the surface biofunctionalization step, that is, the reliable immobilization of the biorecognition element onto the sensor surface. Here, we report the integration of bottom-up synthesized nanoporous graphene onto bimodal waveguide interferometric biosensors as an atomically precise biofunctionalization scaffold. This combination leverages the high sensitivity of bimodal waveguide interferometers and the large functional surface area of nanoporous graphene to create highly sensitive, selective, and robust biosensors for the direct immunoassay detection of C-reactive protein (CRP), an inflammatory biomarker widely used in the clinical diagnosis of infections and sepsis. The limit of detection was determined at 3 ng/mL, which is well below the clinical cutoff levels required for the diagnostic detection of CRP in patient samples. This innovative approach holds promise for transforming diagnostics, environmental monitoring, and various fields requiring precise biomolecular detection.

Real-time monitoring of vancomycin using a split-aptamer surface plasmon resonance biosensor

Real-time monitoring of therapeutic drugs is crucial for treatment management and pharmacokinetic studies. We present the optimization and affinity tuning of split-aptamer sandwich assay for real-time monitoring of the narrow therapeutic window drug vancomycin, using surface plasmon resonance (SPR). To achieve reversible, label-free sensing of small molecules by SPR, we adapted a vancomycin binding aptamer in a sandwich assay format through the split-aptamer approach. By evaluating multiple split sites within the secondary structure of the original aptamer, we identified position 27 (P27) as optimal for preserving target affinity, ensuring reversibility, and maximizing sensitivity. The assay demonstrated robust performance under physiologically relevant ranges of pH and divalent cations, and the specific ternary complex formation of the aptamer split segments with the analyte was confirmed by circular dichroism spectroscopy. Subsequently, we engineered a series of split-aptamer pairs with increasing complementarity in the stem regions, improving both the affinity and limit of detection up to 10-fold, as compared to the primary P27 pair. The kinetics of the engineered split-aptamer pairs were evaluated, revealing fast association and dissociation rates, confirming improved affinity and detection limits across variants. Most importantly, the reversibility of the assay, essential for real-time monitoring, was maintained in all pairs. Finally, the assay was further validated in complex biological matrices, including the cerebrospinal fluid from dogs and diluted plasma from rats, demonstrating functionality in biological environments and stability exceeding 9 hours. Our study paves the way for applications of split-aptamers in real-time monitoring of small molecules, with potential implications for in vivo therapeutic drug monitoring and pharmacokinetic studies.

Innovative Peptide-Based Plasmonic Optical Biosensor for the Determination of Cholesterol

Plasmonic-based biosensors have gained prominence as potent optical biosensing platforms in both scientific and medical research, attributable to their enhanced sensitivity and precision in detecting biomolecular and chemical interactions. However, the detection of low molecular weight analytes with high sensitivity and specificity remains a complex and unresolved issue, posing significant limitations for the advancement of clinical diagnostic tools and medical device technologies. Notably, abnormal cholesterol levels are a well-established indicator of various pathological conditions; yet, the quantitative detection of the free form of cholesterol is complicated by its small molecular size, pronounced hydrophobicity, and the necessity for mediator molecules to achieve efficient sensing. In the present study, a novel strategy for cholesterol quantification was developed, leveraging a plasmonic optical readout in conjunction with a highly specific cholesterol-binding peptide (C-pept) as a biorecognition element, anchored on a functionalized silica substrate. The resulting biosensor exhibited an exceptionally low detection limit of 21.95 µM and demonstrated a linear response in the 10-200 µM range. This peptide-integrated plasmonic sensor introduces a novel one-step competitive method for cholesterol quantification, positioning itself as a highly sensitive biosensing modality for implementation within the AVAC platform, which operates using reflective dark-field microscopy.

Techniques for characterizing biofunctionalized surfaces for bioanalysis purposes

Surface biofunctionalization is an essential stage in the preparation of any bioassay affecting its analytical performance. However, a complete characterization of the biofunctionalized surface, considering studies of coverage density, distribution and orientation of biomolecules, layer thickness, and target biorecognition efficiency, is not met most of the time. This review is a critical overview of the main techniques and strategies used for characterizing biofunctionalized surfaces and the process in between. Emphasis is given to scanning force microscopies as the most versatile and suitable tools to evaluate the quality of the biofunctionalized surfaces in real-time dynamic experiments, highlighting the helpful of atomic force microscopy, Kelvin probe force microscopy, electrochemical atomic force microscopy and photo-induced force microscopy. Other techniques such as optical and electronic microscopies, quartz crystal microbalance, X-ray photoelectron spectroscopy, contact angle, and electrochemical techniques, are also discussed regarding their advantages and disadvantages in addressing the whole characterization of the biomodified surface. Scarce reviews point out the importance of practicing an entire characterization of the biofunctionalized surfaces. This is the first review that embraces this topic discussing a wide variety of characterization tools applied in any bioanalysis platform developed to detect both clinical and environmental analytes. This survey provides information to the analysts on the applications, strengths, and weaknesses of the techniques discussed here to extract fruitful insights from them. The aim is to prompt and help the analysts to accomplish an entire assessment of the biofunctionalized surface, and profit from the information obtained to enhance the bioanalysis output.

Revealing Spatial Molecular Heterogeneity of High-Density Biofunctionalized Surfaces Using DNA-PAINT

The quantification and control of molecular densities and distributions on biofunctionalized surfaces are key for enabling reproducible functions in biosciences. Here, we describe an analysis methodology for quantifying the density and spatial distribution of high-density biofunctionalized surfaces, with densities in the order of 102-105 biomolecules per μm2 area, in a short measurement time. The methodology is based on single-molecule DNA-PAINT imaging combined with simulation models that compensate for lifetime and spatial undersampling effects, resulting in three distinct molecule counting methods and a statistical test for spatial distribution. The analysis methodology is exemplified for a surface with ssDNA affinity binder molecules coupled to a PLL-g-PEG antifouling coating. The results provide insights into the biofunctionalization efficiency, yield, and homogeneity. Furthermore, the data reveal that heterogeneity is inherent to the biofunctionalization process and shed light on the underlying molecular mechanisms. We envision that DNA-PAINT imaging with the developed analysis framework will become a versatile tool to study spatial heterogeneity of densely biofunctionalized surfaces for a wide range of applications.

Optical dark-field spectroscopy of single plasmonic nanoparticles for molecular biosciences

An ideal sensor capable of quantifying analytes in minuscule sample volumes represents a significant technological advancement. Plasmonic nanoparticles integrated with optical dark-field spectroscopy have reached this capability, demonstrating versatility and expanding applicability across in vitro and in vivo subjects. This review underscores the applicability of optical dark-field spectroscopy with single plasmonic nanoparticles to elucidate a wide range of biomolecular characteristics, including binding constants, molecular dynamics, distances, and forces, as well as recording cell communication signals. Perspectives highlight the potential for the development of implantable nanosensors for metabolite detection in animal models, illustrating the technique's efficacy without the need for labeling molecules. In summary, this review aims to consolidate knowledge of this adaptable and robust technique for decoding molecular biological phenomena within the nano- and bio-scientific community.

A plasmonic biosensor pre-diagnostic tool for Familial Mediterranean Fever

Familial Mediterranean Fever (FMF) is an autosomal recessive genetic disorder, primarily observed in populations around the Mediterranean Sea, linked to MEFV gene mutations. These mutations disrupt inflammatory responses, increasing pyrin-protein production. Traditional diagnosis relies on clinical symptoms, family history, acute phase reactants, and excluding similar syndromes with MEFV testing, which is expensive and often inconclusive due to heterozygous mutations. Here, we present a biosensor platform that detects differences in pyrin-protein levels between healthy and affected individuals, offering a cost-effective alternative to genetic testing. Our platform uses gold nanoparticle-based plasmonic chips enhanced with anti-pyrin antibodies, achieving a detection limit of 0.24 ng/mL with high specificity. The system integrates an optofluidic system and visible light spectroscopy for real-time analysis, with signal stability maintained for up to six months. Our technology will enhance FMF diagnosis accuracy, enabling early treatment initiation and providing a cost-effective alternative to genetic testing, thus improving patient care.

An α-helical peptide-based plasmonic biosensor for highly specific detection of α-synuclein toxic oligomers

BACKGROUND

α-Synuclein (αS) aggregation is the main neurological hallmark of a group of neurodegenerative disorders, collectively referred to as synucleinopathies, of which Parkinson's disease (PD) is the most prevalent. αS oligomers are elevated in the cerebrospinal fluid (CSF) of PD patients, standing as a biomarker for disease diagnosis. However, methods for early PD detection are still lacking. We have recently identified the amphipathic 22-residue peptide PSMα3 as a high-affinity binder of αS toxic oligomers. PSMα3 displayed excellent selectivity and reproducibility, binding to αS toxic oligomers with affinities in the low nanomolar range and without detectable cross-reactivity with functional monomeric αS.

RESULTS

In this work, we leveraged these PSMα3 unique properties to design a plasmonic-based biosensor for the direct detection of toxic oligomers under label-free conditions.

SIGNIFICANCE AND NOVELTY

We describe the integration of the peptide in a lab-on-a-chip plasmonic platform suitable for point-of-care measurements of αS toxic oligomers in CSF samples in real-time and at an affordable cost, providing an innovative biosensor for PD early diagnosis in the clinic.

An overview of electrochemical biosensors used for COVID-19 detection

This short review presents the latest advances in the field of electrochemical biosensors, focusing particularly on impedimetric biosensors for the direct measurement of analytes. As a source of study we have chosen to describe these advances in the latest global health crisis originated from the COVID-19 pandemic, initiated by the SARS-CoV-2 virus. In this period, the necessity for swift and precise detection methods has grown rapidly due to an imminent need for the development of an analytical method to identify and isolate infected patients as an attempt to control the spreading of the disease. Traditional approaches such as the enzyme-linked immunosorbent assay (ELISA), were extensively used during the SARS-CoV-2 pandemic, but their drawbacks, including slow response time, became evident. In this context, the potential of electrochemical biosensors as an alternative for COVID-19 detection was emphasized. These biosensors merge electrochemical technology with bioreceptors, offering benefits such as rapidity, accuracy, portability, and real-time result provision. Additionally, we present instances of electrochemical biosensors modified with conductive polymers, eliminating the necessity for an electrochemical probe. The adaptability of the developed materials and devices facilitated the prompt production of electrochemical biosensors during the pandemic, creating opportunities for broader applications in infectious disease diagnosis.

Covalent and Non-covalent In-Flow Biofunctionalization for Capture Assays on Silicon Chips: White Light Reflectance Spectroscopy Immunosensor Combined with TOF-SIMS Resolves Immobilization Stability and Binding Stoichiometry

Immunosensors that combine planar transducers with microfluidics to achieve in-flow biofunctionalization and assay were analyzed here regarding surface binding capacity, immobilization stability, binding stoichiometry, and amount and orientation of surface-bound IgG antibodies. Two IgG immobilization schemes, by physical adsorption [3-aminopropyltriethoxysilane (APTES)] and glutaraldehyde covalent coupling (APTES/GA), followed by blocking with bovine serum albumin (BSA) and streptavidin (STR) capture, are monitored with white light reflectance spectroscopy (WLRS) sensors as thickness d_Γ of the adlayer formed on top of aminosilanized silicon chips. Multi-protein surface composition (IgG, BSA, and STR) is determined by time of flight secondary ion mass spectrometry (TOF-SIMS) combined with principal component analysis (applying barycentric coordinates to the score plot). In-flow immobilization shows at least 1.7 times higher surface binding capacity than static adsorption. In contrast to physical immobilization, which is unstable during blocking with BSA, chemisorbed antibodies desorb (reducing d_Γ) only when the bilayer is formed. Also, TOF-SIMS data show that IgG molecules are partially exchanged with BSA on APTES but not on APTES/GA modified chips. This is confirmed by the WLRS data that show different binding stoichiometry between the two immobilization schemes for the direct binding IgG/anti-IgG assay. The identical binding stoichiometry for STR capture results from partial replacement with BSA of vertically aligned antibodies on APTES, with fraction of exposed Fab domains higher than on APTES/GA.

Spatially Resolved Protein Binding Kinetics Analysis in Microfluidic Photonic Crystal Sensors

Organ-on-a-Chip systems are emerging as an important in vitro analysis method for drug screening and medical research. For continuous biomolecular monitoring of the cell culture response, label-free detection within the microfluidic system or in the drainage tube is promising. We study photonic crystal slabs integrated with a microfluidic chip as an optical transducer for label-free biomarker detection with a non-contact readout of binding kinetics. This work analyzes the capability of same-channel reference for protein binding measurements by using a spectrometer and 1D spatially resolved data evaluation with a spatial resolution of 1.2 μm. A cross-correlation-based data-analysis procedure is implemented. First, an ethanol-water dilution series is used to obtain the limit of detection (LOD). The median of all row LODs is (2.3±0.4)×10-4 RIU with 10 s exposure time per image and (1.3±0.24)×10-4 RIU with 30 s exposure time. Next, we used a streptavidin-biotin binding process as a test system for binding kinetics. Time series of optical spectra were recorded while constantly injecting streptavidin in DPBS at concentrations of 1.6 nM, 3.3 nM, 16.6 nM and 33.3 nM into one channel half as well as the whole channel. The results show that localized binding within a microfluidic channel is achieved under laminar flow. Furthermore, binding kinetics are fading out at the microfluidic channel edge due to the velocity profile.

Biosensors Based on the Binding Events of Nitrilotriacetic Acid-Metal Complexes

Molecular immobilization and recognition are two key events for the development of biosensors. The general ways for the immobilization and recognition of biomolecules include covalent coupling reactions and non-covalent interactions of antigen-antibody, aptamer-target, glycan-lectin, avidin-biotin and boronic acid-diol. Tetradentate nitrilotriacetic acid (NTA) is one of the most common commercial ligands for chelating metal ions. The NTA-metal complexes show high and specific affinity toward hexahistidine tags. Such metal complexes have been widely utilized in protein separation and immobilization for diagnostic applications since most of commercialized proteins have been integrated with hexahistidine tags by synthetic or recombinant techniques. This review focused on the development of biosensors with NTA-metal complexes as the binding units, mainly including surface plasmon resonance, electrochemistry, fluorescence, colorimetry, surface-enhanced Raman scattering spectroscopy, chemiluminescence and so on.

Strategies for Surface Design in Surface Plasmon Resonance (SPR) Sensing

Surface plasmon resonance (SPR) comprises several surface-sensitive techniques that enable the trace and ultra-trace detection of various analytes through affinity pairing. Although enabling label-free, sensitive detection and real-time monitoring, several issues remain to be addressed, such as poor stability, non-specific adsorption and the loss of operational activity of biomolecules. In this review, the progress over sensor modification, immobilization techniques and novel 2D nanomaterials, gold nanostructures and magnetic nanoparticles for signal amplification is discussed. The advantages and disadvantages of each design strategy will be provided together with some of the recent achievements.

Modern Electrochemical Biosensing Based on Nucleic Acids and Carbon Nanomaterials

To meet the requirements of novel therapies, effective treatments should be supported by diagnostic tools characterized by appropriate analytical and working parameters. These are, in particular, fast and reliable responses that are proportional to analyte concentration, with low detection limits, high selectivity, cost-efficient construction, and portability, allowing for the development of point-of-care devices. Biosensors using nucleic acids as receptors has turned out to be an effective approach for meeting the abovementioned requirements. Careful design of the receptor layers will allow them to obtain DNA biosensors that are dedicated to almost any analyte, including ions, low and high molecular weight compounds, nucleic acids, proteins, and even whole cells. The impulse for the application of carbon nanomaterials in electrochemical DNA biosensors is rooted in the possibility to further influence their analytical parameters and adjust them to the chosen analysis. Such nanomaterials enable the lowering of the detection limit, the extension of the biosensor linear response, or the increase in selectivity. This is possible thanks to their high conductivity, large surface-to-area ratio, ease of chemical modification, and introduction of other nanomaterials, such as nanoparticles, into the carbon structures. This review discusses the recent advances on the design and application of carbon nanomaterials in electrochemical DNA biosensors that are dedicated especially to modern medical diagnostics.

Polymer Brushes on Silica Nanostructures Prepared by Aminopropylsilatrane Click Chemistry: Superior Antifouling and Biofunctionality

In nanobiotechnology, the importance of controlling interactions between biological molecules and surfaces is paramount. In recent years, many devices based on nanostructured silicon materials have been presented, such as nanopores and nanochannels. However, there is still a clear lack of simple, reliable, and efficient protocols for preventing and controlling biomolecule adsorption in such structures. In this work, we show a simple method for passivation or selective biofunctionalization of silica, without the need for polymerization reactions or vapor-phase deposition. The surface is simply exposed stepwise to three different chemicals over the course of ∼1 h. First, the use of aminopropylsilatrane is used to create a monolayer of amines, yielding more uniform layers than conventional silanization protocols. Second, a cross-linker layer and click chemistry are used to make the surface reactive toward thiols. In the third step, thick and dense poly(ethylene glycol) brushes are prepared by a grafting-to approach. The modified surfaces are shown to be superior to existing options for silica modification, exhibiting ultralow fouling (a few ng/cm2) after exposure to crude serum. In addition, by including a fraction of biotinylated polymer end groups, the surface can be functionalized further. We show that avidin can be detected label-free from a serum solution with a selectivity (compared to nonspecific binding) of more than 98% without the need for a reference channel. Furthermore, we show that our method can passivate the interior of 150 nm × 100 nm nanochannels in silica, showing complete elimination of adsorption of a sticky fluorescent protein. Additionally, our method is shown to be compatible with modifications of solid-state nanopores in 20 nm thin silicon nitride membranes and reduces the noise in the ion current. We consider these findings highly important for the broad field of nanobiotechnology, and we believe that our method will be very useful for a great variety of surface-based sensors and analytical devices.

Biofunctionalization of Multiplexed Silicon Photonic Biosensors

Silicon photonic (SiP) sensors offer a promising platform for robust and low-cost decentralized diagnostics due to their high scalability, low limit of detection, and ability to integrate multiple sensors for multiplexed analyte detection. Their CMOS-compatible fabrication enables chip-scale miniaturization, high scalability, and low-cost mass production. Sensitive, specific detection with silicon photonic sensors is afforded through biofunctionalization of the sensor surface; consequently, this functionalization chemistry is inextricably linked to sensor performance. In this review, we first highlight the biofunctionalization needs for SiP biosensors, including sensitivity, specificity, cost, shelf-stability, and replicability and establish a set of performance criteria. We then benchmark biofunctionalization strategies for SiP biosensors against these criteria, organizing the review around three key aspects: bioreceptor selection, immobilization strategies, and patterning techniques. First, we evaluate bioreceptors, including antibodies, aptamers, nucleic acid probes, molecularly imprinted polymers, peptides, glycans, and lectins. We then compare adsorption, bioaffinity, and covalent chemistries for immobilizing bioreceptors on SiP surfaces. Finally, we compare biopatterning techniques for spatially controlling and multiplexing the biofunctionalization of SiP sensors, including microcontact printing, pin- and pipette-based spotting, microfluidic patterning in channels, inkjet printing, and microfluidic probes.

On the Use of Polymer-Based Composites for the Creation of Optical Sensors: A Review

Polymers are widely used in many areas, but often their individual properties are not sufficient for use in certain applications. One of the solutions is the creation of polymer-based composites and nanocomposites. In such materials, in order to improve their properties, nanoscale particles (at least in one dimension) are dispersed in the polymer matrix. These properties include increased mechanical strength and durability, the ability to create a developed inner surface, adjustable thermal and electrical conductivity, and many others. The materials created can have a wide range of applications, such as biomimetic materials and technologies, smart materials, renewable energy sources, packaging, etc. This article reviews the usage of composites as a matrix for the optical sensors and biosensors. It highlights several methods that have been used to enhance performance and properties by optimizing the filler. It shows the main methods of combining indicator dyes with the material of the sensor matrix. Furthermore, the role of co-fillers or a hybrid filler in a polymer composite system is discussed, revealing the great potential and prospect of such matrixes in the field of fine properties tuning for advanced applications.