High-Resolution Microspectroscopy of Plasmonic Nanostructures for Miniaturized Biosensing

Tattoo Inks for Optical Biosensing in Interstitial Fluid

The persistence of traditional tattoo inks presents an advantage for continuous and long-term health monitoring in point of care devices. The replacement of tattoo pigments with optical biosensors aims a promising alternative for monitoring blood biomarkers. Tattoo inks functionalization enables the control of interstitial biomarkers with correlated concentrations in plasma, to diagnose diseases, evaluate progression, and prevent complications associated with physio pathological disorders or medication mismatches. The specific biomarkers in interstitial fluid provide a new source of information, especially for skin diseases. The study of tattoo inks displays insufficient regulation in their composition, a lack of reports of the related complications, and a need for further studies on their degradation kinetics. This review focuses on tattoo optical biosensors for monitoring dermal interstitial biomarkers and discusses the clinical advantages and main challenges for in vivo implantation. Tattoo functionalization provides a minimally invasive, reversible, biocompatible, real-time sensing with long-term permanence and multiplexing capabilities for the control, diagnosis, and prevention of illness; it enables self-controlling management by the patient, but also the possibility of sending the records to the doctor.

Biochemical Sensing with Nanoplasmonic Architectures: We Know How but Do We Know Why?

Here, the research field of nanoplasmonic sensors is placed under scrutiny, with focus on affinity-based detection using refractive index changes. This review describes how nanostructured plasmonic sensors can deliver unique advantages compared to the established surface plasmon resonance technique, where a planar metal surface is used. At the same time, it shows that these features are actually only useful in quite specific situations. Recent trends in the field are also discussed and some devices that claim extraordinary performance are questioned. It is argued that the most important challenges are related to limited receptor affinity and nonspecific binding rather than instrumental performance. Although some nanoplasmonic sensors may be useful in certain situations, it seems likely that conventional surface plasmon resonance will continue to dominate biomolecular interaction analysis. For detection of analytes in complex samples, plasmonics may be an important tool, but probably not in the form of direct refractometric detection.

Advanced Nanoporous Anodic Alumina-Based Optical Sensors for Biomedical Applications

Close-packed hexagonal array nanopores are widely used both in research and industry. A self-ordered nanoporous structure makes anodic aluminum oxide (AAO) one of the most popular nanomaterials. This paper describes the main formation mechanisms for AAO, the AAO fabrication process, and optical sensor applications. The paper is focused on four types of AAO-based optical biosensor technology: surface-Enhanced Raman Scattering (SERS), surface Plasmon Resonance (SPR), reflectometric Interference Spectroscopy (RIfS), and photoluminescence Spectroscopy (PL). AAO-based optical biosensors feature very good selectivity, specificity, and reusability.

Generic high-capacity protein capture and release by pH control

Techniques for immobilization and release of proteins are of general interest but challenging to develop. Here we show a new method for high-capacity (several μg cm^-2) immobilization of proteins in polyelectrolyte brushes by multivalent hydrogen bonds. Upon increasing pH, the proteins are fully released with preserved structure and activity.

Enhancing biosensing sensitivity of metal nanostructures through site-selective binding

The localised surface plasmon resonance (LSPR) at the surface of metal nanostructures can induce a highly intense electromagnetic (EM) field, which is confined to the edges with big curvature or at narrow gaps between nanostructures. Therefore, the localisation of target molecules at these sites is crucial to achieve high sensitivity in LSPR-based biosensors. To this end, we fabricated a 40 nm high gold nano-truncated cone (GNTC) array using thermal nanoimprint lithography. As the EM field is most intense at the side surface and relatively weak at the top surface of GNTC, we improved the detection sensitivity by blocking the top surface with oxides to limit adsorption of antibodies and antigens to the top surface. We observed the difference in sensitivity by detecting α-fetoprotein (AFP) on the oxide-capped and uncapped GNTC arrays through sandwich immunoassay and enzymatic precipitation. The capped GNTC array exhibited higher detection sensitivity than the uncapped one. Particularly, six-fold enhancement of sensitivity was achieved in the serum sample. We used atomic force microscopy and electron microscopy to validate that the deposition of the oxides on the top surface of GNTC effectively blocked the adsorption of the biomolecules and the target molecules were preferentially adsorbed on the side surfaces.

Development of Label-Free Colorimetric Assay for MERS-CoV Using Gold Nanoparticles

Worldwide outbreaks of infectious diseases necessitate the development of rapid and accurate diagnostic methods. Colorimetric assays are a representative tool to simply identify the target molecules in specimens through color changes of an indicator (e.g., nanosized metallic particle, and dye molecules). The detection method is used to confirm the presence of biomarkers visually and measure absorbance of the colored compounds at a specific wavelength. In this study, we propose a colorimetric assay based on an extended form of double-stranded DNA (dsDNA) self-assembly shielded gold nanoparticles (AuNPs) under positive electrolyte (e.g., 0.1 M MgCl2) for detection of Middle East respiratory syndrome coronavirus (MERS-CoV). This platform is able to verify the existence of viral molecules through a localized surface plasmon resonance (LSPR) shift and color changes of AuNPs in the UV-vis wavelength range. We designed a pair of thiol-modified probes at either the 5' end or 3' end to organize complementary base pairs with upstream of the E protein gene (upE) and open reading frames (ORF) 1a on MERS-CoV. The dsDNA of the target and probes forms a disulfide-induced long self-assembled complex, which protects AuNPs from salt-induced aggregation and transition of optical properties. This colorimetric assay could discriminate down to 1 pmol/μL of 30 bp MERS-CoV and further be adapted for convenient on-site detection of other infectious diseases, especially in resource-limited settings.

Unravelling the Role of Electric and Magnetic Dipoles in Biosensing with Si Nanoresonators

High refractive index dielectric nanoresonators are attracting much attention due to their ability to control both electric and magnetic components of light. Due to the combination of confined modes with reduced absorption losses, they have recently been proposed as an alternative to nanoplasmonic biosensors. In this context, we study the use of semirandom silicon nanocylinder arrays, fabricated with simple and scalable colloidal lithography for the efficient and reliable detection of biomolecules in biological samples. Interestingly, electric and magnetic dipole resonances are associated with two different transduction mechanisms: extinction decrease and resonance red shift. By contrasting both observables, we identify clear advantages in tracking changes in the extinction magnitude. Our data demonstrate that, despite its simplicity, the proposed platform is able to detect prostate-specific antigen in human serum with limits of detection meeting clinical needs.

Protection of silver and gold LSPR biosensors in corrosive NaCl environment by short alkanethiol molecules; characterized by extinction spectrum, helium ion microscopy and SERS

We investigated the utility of localized surface plasmon resonance sensors in a biologically relevant environment containing NaCl. Our sensors are fabricated by depositing gold or silver on a monolayer of adsorbed monodisperse SiO₂ nanospheres. While silver nanostructures are rather unstable in air and water as assessed by drifts in the extinction peak, even gold nanostructures have been found to drift at elevated NaCl concentrations. In an attempt to protect these nanostructures against NaCl, we modified them with alkanethiols with different lengths in the vapor phase and found that shorter chain alkanethiols such as 1-butanethiol are particularly effective against even 250 mM NaCl, rather than longer-chain alkanethiols more suitable for robust SAM formation. A vapor phase treatment method, in contrast to widely used solution phase treatment methods, was selected with the intention of reducing the solvent effect, i.e. destruction of intricate nanostructures upon contact with a solvent when nanostructures have been prepared in a vacuum system. Moreover, the treatment with 1-butanethiol led to an enhanced sensitivity as expressed by peak shift in nm per refractive index unit, nm per RIU. We show the results of evaluating alkanethiol-protected silver and gold nanostructures by extinction spectroscopy, helium ion microscopy and surface-enhanced Raman spectroscopy. The vapor phase treatment method with short chain alkanethiols is an effective way to protect intricate gold and silver nanostructures prepared in a vacuum system.

We investigated the utility of localized surface plasmon resonance sensors in a biologically relevant environment containing NaCl.

Detecting Selective Protein Binding Inside Plasmonic Nanopores: Toward a Mimic of the Nuclear Pore Complex

Biosensors based on plasmonic nanostructures offer label-free and real-time monitoring of biomolecular interactions. However, so do many other surface sensitive techniques with equal or better resolution in terms of surface coverage. Yet, plasmonic nanostructures offer unique possibilities to study effects associated with nanoscale geometry. In this work we use plasmonic nanopores with double gold films and detect binding of proteins inside them. By thiol and trietoxysilane chemistry, receptors are selectively positioned on the silicon nitride interior walls. Larger (~150 nm) nanopores are used detect binding of averaged sized proteins (~60 kg/mol) with high signal to noise (>100). Further, we fabricate pores that approach the size of the nuclear pore complex (diameter down to 50 nm) and graft disordered phenylalanine-glycine nucleoporin domains to the walls, followed by titration of karyopherinβ1 transport receptors. The interactions are shown to occur with similar affinity as determined by conventional surface plasmon resonance on planar surfaces. Our work illustrates another unique application of plasmonic nanostructures, namely the possibility to mimic the geometry of a biological nanomachine with integrated optical sensing capabilities.

Exploring Molecular-Biomembrane Interactions with Surface Plasmon Resonance and Dual Polarization Interferometry Technology: Expanding the Spotlight onto Biomembrane Structure

The molecular analysis of biomolecular-membrane interactions is central to understanding most cellular systems but has emerged as a complex technical challenge given the complexities of membrane structure and composition across all living cells. We present a review of the application of surface plasmon resonance and dual polarization interferometry-based biosensors to the study of biomembrane-based systems using both planar mono- or bilayers or liposomes. We first describe the optical principals and instrumentation of surface plasmon resonance, including both linear and extraordinary transmission modes and dual polarization interferometry. We then describe the wide range of model membrane systems that have been developed for deposition on the chips surfaces that include planar, polymer cushioned, tethered bilayers, and liposomes. This is followed by a description of the different chemical immobilization or physisorption techniques. The application of this broad range of engineered membrane surfaces to biomolecular-membrane interactions is then overviewed and how the information obtained using these techniques enhance our molecular understanding of membrane-mediated peptide and protein function. We first discuss experiments where SPR alone has been used to characterize membrane binding and describe how these studies yielded novel insight into the molecular events associated with membrane interactions and how they provided a significant impetus to more recent studies that focus on coincident membrane structure changes during binding of peptides and proteins. We then discuss the emerging limitations of not monitoring the effects on membrane structure and how SPR data can be combined with DPI to provide significant new information on how a membrane responds to the binding of peptides and proteins.

An innovative application of time-domain spectroscopy on localized surface plasmon resonance sensing

White-light scanning interferometry (WLSI) is often used to study the surface profiles and properties of thin films because the strength of the technique lies in its ability to provide fast and high resolution measurements. An innovative attempt is made in this paper to apply WLSI as a time-domain spectroscopic system for localized surface plasmon resonance (LSPR) sensing. A WLSI-based spectrometer is constructed with a breadboard of WLSI in combination with a spectral centroid algorithm for noise reduction and performance improvement. Experimentally, the WLSI-based spectrometer exhibits a limit of detection (LOD) of 1.2 × 10^-3 refractive index units (RIU), which is better than that obtained with a conventional UV-Vis spectrometer, by resolving the LSPR peak shift. Finally, the bio-applicability of the proposed spectrometer was investigated using the rs242557 tau gene, an Alzheimer's and Parkinson's disease biomarker. The LOD was calculated as 15 pM. These results demonstrate that the proposed WLSI-based spectrometer could become a sensitive time-domain spectroscopic biosensing platform.

Polymer mediated layer-by-layer assembly of different shaped gold nanoparticles

Gold nanoparticles (GNPs) have a wide range of properties with potential applications in electronics, optics, catalysis, and sensing. In order to demonstrate that dense, stable, and portable samples could be created for these applications, multiple layers of GNPs were assembled via drop casting on glass substrates by layer-by-layer (LBL) techniques. Two cationic polyelectrolytes, poly(diallyldimethylammonium chloride) and polyethyleneimine, one anionic polyelectrolyte, poly(sodium 4-styrene sulfonate), and one neutral polymer, polyvinylpyrrolidone, were combined with four different shapes of GNPs (spherical, rod, triangular prismatic, and octahedral) to prepare thin films. A subset of these polymer nanoparticle combinations were assembled into thin films. Synthesized GNPs were characterized via dynamic light scattering, UV-vis spectroscopy, and transmission electron microscopy and the LBL thin films were characterized using UV-vis spectroscopy and atomic force microscopy. Sensing applications of the nanoparticles in solution and thin films were tested by monitoring the localized surface plasmon resonance of the GNPs. LBL thin films were prepared ranging from 25 to 100 layers with optical densities at plasmon from 0.5 to 3.0. Sensitivity in solutions ranged from 14 to 1002nm/refractive index units (RIU) and films ranged from 18.8 to 135.1nm/RIU suggesting reduced access to the GNPs within the films.

Analysis of Phospholipid Bilayers on Gold Nanorods by Plasmon Resonance Sensing and Surface-Enhanced Raman Scattering

Surface-enhanced Raman scattering (SERS) and localized surface plasmon resonance sensing (LSPR) have been applied for a detailed analysis of lipid bilayers at the surface of gold nanorods. The spatial dependence of surface enhancement and the optical effects of the lipid phase transition confirm the presence of a bilayer membrane structure. Deuterated lipids exchanged rapidly between the nanorod surface and lipid vesicles in solution, suggesting a loosely bound, natural membrane structure. However, at a low solution concentration of lipid vesicles, the lipids on the gold nanorod surface convert to a nonbilayer structure, which could impact biological applications of these nanomaterials.

Plasmonic biosensors

The unique optical properties of plasmon resonant nanostructures enable exploration of nanoscale environments using relatively simple optical characterization techniques. For this reason, the field of plasmonics continues to garner the attention of the biosensing community. Biosensors based on propagating surface plasmon resonances (SPRs) in films are the most well-recognized plasmonic biosensors, but there is great potential for the new, developing technologies to surpass the robustness and popularity of film-based SPR sensing. This review surveys the current plasmonic biosensor landscape with emphasis on the basic operating principles of each plasmonic sensing technique and the practical considerations when developing a sensing platform with the various techniques. The 'gold standard' film SPR technique is reviewed briefly, but special emphasis is devoted to the up-and-coming localized surface plasmon resonance and plasmonically coupled sensor technology.

LSPR chip for parallel, rapid, and sensitive detection of cancer markers in serum

Label-free biosensing based on metallic nanoparticles supporting localized surface plasmon resonances (LSPR) has recently received growing interest (Anker, J. N., et al. Nat. Mater. 2008, 7, 442-453). Besides its competitive sensitivity (Yonzon, C. R., et al. J. Am. Chem. Soc. 2004, 126, 12669-12676; Svendendahl, M., et al. Nano Lett. 2009, 9, 4428-4433) when compared to the surface plasmon resonance (SPR) approach based on extended metal films, LSPR biosensing features a high-end miniaturization potential and a significant reduction of the interrogation device bulkiness, positioning itself as a promising candidate for point-of-care diagnostic and field applications. Here, we present the first, paralleled LSPR lab-on-a-chip realization that goes well beyond the state-of-the-art, by uniting the latest advances in plasmonics, nanofabrication, microfluidics, and surface chemistry. Our system offers parallel, real-time inspection of 32 sensing sites distributed across 8 independent microfluidic channels with very high reproducibility/repeatability. This enables us to test various sensing strategies for the detection of biomolecules. In particular we demonstrate the fast detection of relevant cancer biomarkers (human alpha-feto-protein and prostate specific antigen) down to concentrations of 500 pg/mL in a complex matrix consisting of 50% human serum.

Enhanced infrared LSPR sensitivity of cap-shaped gold nanoparticles coupled to a metallic film

We report on optical properties of gold deposited on SiO2 nanospheres randomly adsorbed on a thin gold layer. Extinction peaks with optical density of more than 2 are observed in the visible as well as near-IR regimes. The peak wavelength of the latter was affected exquisitely by the thickness of the top layer. A helium ion microscope (HIM) was used for careful observation of morphological transformation accompanying the change in the deposition thickness. Growth of grain structures into a capped-dimer structure was accompanied by slight blue-shift of the visible peak and significantly greater red-shift of the near-IR peak. Our finite-difference time-domain (FDTD) calculations show that these peaks in the visible and near-IR can be respectively attributed to dipole modes associated with transverse and longitudinal oscillations of free electrons in the gold-capped dimer. To investigate the refractive index sensitivity of these peaks, we used two approaches: immersion in solutions of varying refractive index and coating with an organic layer. With the first approach that characterizes the bulk sensitivity, the visible peak shows sensitivity of 122 nm/RIU, while the near-IR peak shifts at the rate of 506 nm/RIU. With the second approach that reflects the local sensitivity, the surface was saturated with alkaline phosphatase (ALP), whose subsequent reaction led to formation of a thin insoluble organic layer, causing a relatively small blue-shift, under 7 nm, of the visible peak and much larger red-shift, over 50 nm, of the near-IR peak when measured in buffer. When the same reaction was measured at end points in the air, the shift was as large as 444 nm for the near-IR peak.

Plasmon-enhanced four-wave mixing by nanoholes in thin gold films

Nonlinear plasmonics opens up for wavelength conversion, reduced interaction/emission volumes, and nonlinear enhancement effects at the nanoscale with many compelling nanophotonic applications foreseen. We investigate nonlinear plasmonic responses of nanoholes in thin gold films by exciting the holes individually with tightly focused laser beams, employing a degenerated pump/probe and Stokes excitation scheme. Excitation of the holes results in efficient generation of both narrowband four-wave mixing (FWM) and broadband multiphoton excited luminescence, blueshifted relative to the excitation beams. Clear enhancements were observed when matching the pump/probe wavelength with the hole plasmon resonance. These observations show that the FWM generation is locally excited by nanoholes and has a resonant behavior primarily governed by the dimensions of the individual holes.

High sensitivity molecule detection by plasmonic nanoantennas with selective binding at electromagnetic hotspots

We report a highly sensitive biomolecule detection by plasmonic nanoantenna arrays with selective binding at the optical hotspots. The plasmonic nanoantennas consist of two separated Au nanorods with a thin Ti disk placed in between. By using selective surface modification chemistry, controlled binding occurs only in the gaps between the plasmonic nanoantennas, which ensures a high detection sensitivity. Both optical characterization using a dark field microscope and the FDTD simulation show that after the streptavidin binding, the signal increases with decreasing gap size. Compared to a single nanorod, the signal obtained per bound molecule in the nanoantennas increases by a factor of six, which is promising with respect to the future detection of single molecules.

Plasmonic interferometric sensor arrays for high-performance label-free biomolecular detection

A plasmonic interferometric biosensor that consists of arrays of circular aperture-groove nanostructures patterned on a gold film for phase-sensitive biomolecular detection is demonstrated. The phase and amplitude of interfering surface plasmon polaritons (SPPs) in the proposed device can be effectively engineered by structural tuning, providing flexible and efficient control over the plasmon line shape observed through SPP interference. Spectral fringes with high contrast, narrow linewidth, and large amplitude have been experimentally measured and permit the sensitive detection of protein surface coverage as low as 0.4 pg mm(-2). This sensor resolution compares favorably with commercial prism-based surface plasmon resonance systems (0.1 pg mm(-2)) but is achieved here using a significantly simpler collinear transmission geometry, a miniaturized sensor footprint, and a low-cost compact spectrometer. Furthermore, we also demonstrate superior sensor performance using the intensity interrogation method, which can be combined with CCD imaging to upscale our platform to high-throughput array sensing. A novel low-background interferometric sensing scheme yields a high sensing figure of merit (FOM*) of 146 in the visible region, surpassing that of previous plasmonic biosensors and facilitating ultrasensitive high-throughput detection.

Using the Localized Surface Plasmon Resonance of Gold Nanoparticles to Monitor Lipid Membrane Assembly and Protein Binding

Gold nanoparticles provide a template for preparing supported lipid layers with well-defined curvature. Here, we utilize the localized surface plasmon resonance (LSPR) of gold nanoparticles as a sensor for monitoring the preparation of lipid layers on nanoparticles. The LSPR is very sensitive to the immediate surroundings of the nanoparticle surface and it is used to monitor the coating of lipids and subsequent conversion of a supported bilayer to a hybrid membrane with an outer lipid leaflet and an inner leaflet containing hydrophobic alkanethiol. We demonstrate that both decanethiol and propanethiol are able to form hybrid membranes and that the membrane created over the shorter thiol can be stripped from the gold along with the lipid leaflet using β-mercaptoethanol. The sensitivity of the nanoparticle LSPR to the refractive index (RI) of its surroundings is greater when the shorter thiol is used (37.8 ± 1.5 nm per RI unit) than when the longer thiol is used (27.5 ± 0.5 nm per RI unit). Finally, C-reactive protein binding to the membrane is measured using this sensor allowing observation of both protein-membrane and nanoparticle-nanoparticle interactions without chemical labeling of protein or lipids.

Fluorescence ratiometric properties induced by nanoparticle plasmonics and nanoscale dye dynamics

Nanoscale transport of merocyanine 540 within/near the plasmon field of gold nanoparticles was recognized as an effective inducer of single-excitation dual-emission ratiometric properties. With a high concentration of the signal transducer (ammonium), a 700% increase in fluorescence was observed at the new red-shifted emission maximum, compared to a nanoparticle free sensor membrane. A previously nonrecognized isosbestic point is demonstrated at 581.4 ± 0.1 nm. The mechanism can be utilized for enhanced and simplified ratiometric optical chemical sensors and potentially for thin film engineering to make solar cells more effective and stable by a broader and more regulated absorption.

Plasmonic interferometers for label-free multiplexed sensing

We report a plasmonic interferometric biosensor based on a simple slit-groove metallic nanostructure that monitors the phase changes of surface plasmon polaritons resulting from biomolecular adsorptions. The proposed sensing scheme integrates the strengths of miniaturized plasmonic architectures with sensitive optical interferometry techniques. Sensing peak linewidths as narrow as 7 nm and refractive index resolutions of 1 × 10(-5) RIU were experimentally measured from a miniaturized sensing area of 10 × 30 µm(2) using a collinear transmission setup and a low-cost compact spectrometer. A high-density array of such interferometric sensors was also fabricated to demonstrate its potential for real-time multiplexed sensing using a CCD camera for intensity interrogation. A self-referencing method was introduced to increase the sensitivity and reduce sensor noise for multiplexing measurements. The enhanced sensing performance, small sensor footprint, and simple instrumentation and optical alignment suggest promise to integrate this platform into low-cost label-free biosensing devices with high multiplexing capabilities.

Promises and Challenges of Nanoplasmonic Devices for Refractometric Biosensing

Optical biosensors based on surface plasmon resonance (SPR) in metallic thin films are currently standard tools for measuring molecular binding kinetics and affinities - an important task for biophysical studies and pharmaceutical development. Motivated by recent progress in the design and fabrication of metallic nanostructures, such as nanoparticles or nanoholes of various shapes, researchers have been pursuing a new generation of biosensors harnessing tailored plasmonic effects in these engineered nanostructures. Nanoplasmonic devices, while demanding nanofabrication, offer tunability with respect to sensor dimension and physical properties, thereby enabling novel biological interfacing opportunities and extreme miniaturization. Here we provide an integrated overview of refractometric biosensing with nanoplasmonic devices and highlight some recent examples of nanoplasmonic sensors capable of unique functions that are difficult to accomplish with conventional SPR. For example, since the local field strength and spatial distribution can be readily tuned by varying the shape and arrangement of nanostructures, biomolecular interactions can be controlled to occur in regions of high field strength. This may improve signal-to-noise and also enable sensing a small number of molecules. Furthermore, the nanoscale plasmonic sensor elements may, in combination with nanofabrication and materials-selective surface-modifications, make it possible to merge affinity biosensing with nanofluidic liquid handling.

Optical properties of nanohole arrays in metal-dielectric double films prepared by mask-on-metal colloidal lithography

We present the fabrication and optical characterization of plasmonic nanostructures consisting of nanohole arrays in two thin films, a metal and a dielectric. A novel method called mask-on-metal colloidal lithography is used to prepare high aspect ratio holes, providing efficient mass fabrication of stable structures with close to vertical walls and without the need for an adhesion layer under the metal. Our approach for understanding the transmission properties is based on solving the dispersions of the guided modes supported by the two films and calculating the influence from interference. The methodology is generic and can be extended to multilayered films. In particular, the influence from coupling to waveguide modes is discussed. We show that by rational design of structural dimensions it is possible to study only bonding surface plasmons and the associated hole transmission maximum. Further, numerical simulations with the multiple multipole program provide good agreement with experimental data and enable visualization of the asymmetric near-field distribution in the nanohole arrays, which is focused to the interior of the "nanowells". The refractometric sensitivity is evaluated experimentally both by liquid bulk changes and surface adsorption. We demonstrate how the localized mode provides reasonably good sensitivity in terms of resonance shift to molecular binding inside the voids. Importantly, high resolution sensing can be accomplished also for the surface plasmon mode, despite its extremely low figure of merit. This is accomplished by monitoring the coupling efficiency of light to plasmons instead of conventional sensing which is based on changes in plasmon energy. We suggest that these nanohole structures can be used for studying molecular transport through nanopores and the behavior of molecules confined in volumes of approximately one attoliter.

High throughput fabrication of plasmonic nanostructures in nanofluidic pores for biosensing applications

One of the primary advantages of nanoscale sensors is that they often can provide conceptually new ways of performing sensing that are not feasible with their large-scale analogs. For example, the small size of nanoscale sensor elements, such as plasmonic metal nanoparticles, allows them to be combined with nanofluidic systems. Among the potential applications of such a combination is the efficient delivery of analyte to the sensor surface. With this in mind, in this work we look to address the challenge of creating and positioning nanoplasmonic sensor elements within nanofluidic pores. A scheme is presented that allows for the production of arrays of pores in a thin (220 nm) silicon nitride membrane with one plasmonic nanoparticle sensor element in each pore. The high throughput fabrication protocol is parallel and enables multiple sensor chips to be produced simultaneously, yet with accurate tuning of the dimension and shape of the nanoparticles. The presented system is shown to possess polarization-sensitive plasmonic resonances that can be tuned significantly in the visible wavelength range by just varying one process parameter. The thickness of the membrane could be optimized to minimize the influence of the optical membrane interference on the plasmonic readout. The sensitivity of the plasmon resonances to changes in refractive index, which forms the basis for using the system for biosensing, was found to be competitive with other nanoplasmonic sensors.

Sensing using localised surface plasmon resonance sensors

The bright colours of noble metal particles have attracted considerable interest since historical times, where they were used as decorative pigments in stained glass windows. More recently, the tuneable optical properties of metal nanoparticles and their addressability via spectroscopic techniques have brought them back into the forefront of fundamental and applied research fields. Much of the recent attention concerning metal nanoparticles such as gold and silver has been their use as small-volume, ultra-sensitive label-free optical sensors. Plasmonic nanoparticles act in this case as transducers that convert changes in the local refractive index into spectral shifts of the localized surface plasmon resonance (LSPR) band. This LSPR-shift assay is a general technique for measuring binding affinities and rates from any molecule that induces a change in the local refractive index around the metallic nanostructures. By attaching molecular recognition elements (chemical or biological ligands) on the nanostructures, specificity and selectivity to the analyte of interest are introduced into the nanosensor. In this review, we will discuss the different methods used to fabricate plasmonic nanosensors. A special emphasis will be given to techniques used to link plasmonic nanostructures to surfaces. While the difference between colorimetric and refractive index sensing approaches will be briefly described, the importance to distinguish between bulk refractive index (RI) sensing and molecular near-field refractive index sensing will be discussed. The recent progress made in the development of novel surface functionalization strategies together with the formation of optically and mechanically stable LSPR sensors will be highlighted.

Nanoplasmonic sensing of metal-halide complex formation and the electric double layer capacitor

Many nanotechnological devices are based on implementing electrochemistry with plasmonic nanostructures, but these systems are challenging to understand. We present a detailed study of the influence of electrochemical potentials on plasmon resonances, in the absence of surface coatings and redox active molecules, by synchronized voltammetry and spectroscopy. The experiments are performed on gold nanodisks and nanohole arrays in thin gold films, which are fabricated by improved methods. New insights are provided by high resolution spectroscopy and variable scan rates. Furthermore, we introduce new analytical models in order to understand the spectral changes quantitatively. In contrast to most previous literature, we find that the plasmonic signal is caused almost entirely by the formation of ionic complexes on the metal surface, most likely gold chloride in this study. The refractometric sensing effect from the ions in the electric double layer can be fully neglected, and the charging of the metal gives a surprisingly small effect for these systems. Our conclusions are consistent for both localized nanoparticle plasmons and propagating surface plasmons. We consider the results in this work especially important in the context of combined electrochemical and optical sensors.

Size matters: problems and advantages associated with highly miniaturized sensors

There is no doubt that the recent advances in nanotechnology have made it possible to realize a great variety of new sensors with signal transduction mechanisms utilizing physical phenomena at the nanoscale. Some examples are conductivity measurements in nanowires, deflection of cantilevers and spectroscopy of plasmonic nanoparticles. The fact that these techniques are based on the special properties of nanostructural entities provides for extreme sensor miniaturization since a single structural unit often can be used as transducer. This review discusses the advantages and problems with such small sensors, with focus on biosensing applications and label-free real-time analysis of liquid samples. Many aspects of sensor design are considered, such as thermodynamic and diffusion aspects on binding kinetics as well as multiplexing and noise issues. Still, all issues discussed are generic in the sense that the conclusions apply to practically all types of surface sensitive techniques. As a counterweight to the current research trend, it is argued that in many real world applications, better performance is achieved if the active sensor is larger than that in typical nanosensors. Although there are certain specific sensing applications where nanoscale transducers are necessary, it is argued herein that this represents a relatively rare situation. Instead, it is suggested that sensing on the microscale often offers a good compromise between utilizing some possible advantages of miniaturization while avoiding the complications. This means that ensemble measurements on multiple nanoscale sensors are preferable instead of utilizing a single transducer entity.

Material-selective surface chemistry for nanoplasmonic sensors: optimizing sensitivity and controlling binding to local hot spots

Optical sensors utilizing the principle of localized surface plasmon resonance (LSPR) offer the advantage of a simple label-free mode of operation, but the sensitivity is typically limited to a very thin region close to the surface. In bioanalytical sensing applications, this can be a significant drawback, in particular since the surface needs to be coated with a recognition layer in order to ensure specific detection of target molecules. We show that the signal upon protein binding decreases dramatically with increasing thickness of the recognition layer, highlighting the need for thin high quality recognition layers compatible with LSPR sensors. The effect is particularly strong for structures that provide local hot spots with highly confined fields, such as in the gap between pairs of gold disks. While our results show a significant improvement in sensor response for pairs over single gold disks upon binding directly to the gold surface, disk pairs did not provide larger signal upon binding of proteins to a recognition layer (already for around 3 nm thin layers) located on the gold. Local plasmonic hot spots are however shown advantageous in combination with directed binding to the hot spots. This was demonstrated using a structure consisting of three surface materials (gold, titanium dioxide, and silicon dioxide) and a new protocol for material-selective surface chemistry of these three materials, which allows for controlled binding only in the gap between pairs of disks. Such a design increased the signal obtained per bound molecule by a factor of around four compared to binding to single disks.

Nanofabrication for the analysis and manipulation of membranes

Recent advancements and applications of nanofabrication have enabled the characterization and control of biological membranes at submicron scales. This review focuses on the application of nanofabrication towards the nanoscale observing, patterning, sorting, and concentrating membrane components. Membranes on living cells are a necessary component of many fundamental cellular processes that naturally incorporate nanoscale rearrangement of the membrane lipids and proteins. Nanofabrication has advanced these understandings, for example, by providing 30 nm resolution of membrane proteins with metal-enhanced fluorescence at the tip of a scanning probe on fixed cells. Naturally diffusing single molecules at high concentrations on live cells have been observed at 60 nm resolution by confining the fluorescence excitation light through nanoscale metallic apertures. The lateral reorganization on the plasma membrane during membrane-mediated signaling processes has been examined in response to nanoscale variations in the patterning and mobility of the signal-triggering molecules. Further, membrane components have been separated, concentrated, and extracted through on-chip electrophoretic and microfluidic methods. Nanofabrication provides numerous methods for examining and manipulating membranes for both greater understandings of membrane processes as well as for the application of membranes to other biophysical methods.

Development of a mass-producible on-chip plasmonic nanohole array biosensor

We have developed a polymer film based plasmonic device whose optical properties are tuned for measuring biological samples. The device has a circular nanohole array structure fabricated with a nanoimprint technique using a UV curable polymer, and then gold thin film is deposited by electron beam deposition. Therefore, the device is mass-producible, which is also very important for bioaffinity sensors. First the gold film thickness and hole depth were optimized to obtain the maximum dip shift for the reflection spectra. The dip shift is equivalent to the sensitivity to refractive index changes at the plasmonic device surface. We also calculated the variation in reflection spectra by changing the above conditions using the finite-difference time domain method, and we obtained agreement between the theoretical and experimental curves. The nanohole periodicity was adjusted from 400 to 900 nm to make it possible to perform measurements in the visible wavelength region to measure the aqueous samples with less optical absorption. The tuned bottom filled gold nanohole array was incorporated in a microfluidic device covered with a PDMS based microchannel that was 2 mm wide and 20 μm deep. As a proof of concept, the device was used to detect TNF-α by employing a direct immunochemical reaction on the plasmonic array, and a detection limit of 21 ng mL(-1) was obtained by amplification with colloidal gold labeling instead of enzymatic amplification.

Medicinal chemistry for 2020

Rapid advances in our collective understanding of biomolecular structure and, in concert, of biochemical systems, coupled with developments in computational methods, have massively impacted the field of medicinal chemistry over the past two decades, with even greater changes appearing on the horizon. In this perspective, we endeavor to profile some of the most prominent determinants of change and speculate as to further evolution that may consequently occur during the next decade. The five main angles to be addressed are: protein-protein interactions; peptides and peptidomimetics; molecular diversity and pharmacological space; molecular pharmacodynamics (significance, potential and challenges); and early-stage clinical efficacy and safety. We then consider, in light of these, the future of medicinal chemistry and the educational preparation that will be required for future medicinal chemists.

Plasmophore sensitized imaging of ammonia release from biological tissues using optodes

A plasmophore sensitized optode was developed for imaging ammonia (NH(3)) concentrations in muscle tissues. The developed ammonia sensor and an equivalent non plasmophore version of the sensor were tested side by side to compare their limit of detection, dynamic range, reversibility and overall imaging quality. Bio-degradation patterns of ammonia release from lean porcine skeletal muscle were studied over a period of 11 days. We demonstrate that ammonia concentrations ranging from 10nM can be quantified reversibly with an optical resolution of 127 μm in a sample area of 25 mm × 35 mm. The plasmophore ammonia optode showed improved reversibility, less false pixels and a 2 nM ammonia detection limit compared to 200 nM for the non-plasmophore sensor. Main principles of the sensing mechanism include ammonia transfer over a gas permeable film, ammonia protonation, nonactin facilitated merocyanine-ammonium coextraction and plasmophore enhancement. The vast signal improvement is suggested to rely on solvatochroism, nanoparticle scattering and plasmonic interactions that are utilized constructively in a fluorescence ratio. In addition to fundamental medicinal and biological research applications in tissue physiology, reversible ammonia quantification will be possible for a majority of demanding imaging and non imaging applications such as monitoring of low ammonia background concentrations in air and non-invasive medicinal diagnosis through medical breath or saliva analysis. The nanoparticle doped sensor constitutes a highly competitive technique for ammonia sensing in complex matrixes and the general sensing scheme offers new possibilities for the development of artificial optical noses and tongues.

Review of transducer principles for label-free biomolecular interaction analysis

Label-free biomolecular interaction analysis is an important technique to study the chemical binding between e.g., protein and protein or protein and small molecule in real-time. The parameters obtained with this technique, such as the affinity, are important for drug development. While the surface plasmon resonance (SPR) instruments are most widely used, new types of sensors are emerging. These developments are generally driven by the need for higher throughput, lower sample consumption or by the need of complimentary information to the SPR data. This review aims to give an overview about a wide range of sensor transducers, the working principles and the peculiarities of each technology, e.g., concerning the set-up, sensitivity, sensor size or required sample volume. Starting from optical technologies like the SPR and waveguide based sensors, acoustic sensors like the quartz crystal microbalance (QCM) and the film bulk acoustic resonator (FBAR), calorimetric and electrochemical sensors are covered. Technologies long established in the market are presented together with those newly commercially available and with technologies in the early development stage. Finally, the commercially available instruments are summarized together with their sensitivity and the number of sensors usable in parallel and an outlook for potential future developments is given.

Plasmon-enhanced colorimetric ELISA with single molecule sensitivity

Robust but ultrasensitive biosensors with a capability of detecting low abundance biomarkers could revolutionize clinical diagnostics and enable early detection of cancer, neurological diseases, and infections. We utilized a combination of localized surface plasmon resonance (LSPR) refractive index sensing and the well-known enzyme-linked immunosorbent assay to develop a simple colorimetric biosensing methodology with single molecule sensitivity. The technique is based on spectral imaging of a large number of isolated gold nanoparticles. Each particle binds a variable number of horseradish peroxidase (HRP) enzyme molecules that catalyze a localized precipitation reaction at the particle surface. The enzymatic reaction dramatically amplifies the shift of the LSPR scattering maximum, λ(max), and makes it possible to detect the presence of only one or a few HRP molecules per particle.

Metallic nanodot arrays by stencil lithography for plasmonic biosensing applications

The fabrication of gold nanodots by stencil lithography and its application for optical biosensing based on localized surface plasmon resonance are presented. Arrays of 50-200 nm wide nanodots with different spacing of 50-300 nm are fabricated without any resist, etching, or lift-off process. The dimensions and morphology of the nanodots were characterized by scanning electron and atomic force microscopy. The fabricated nanodots showed localized surface plasmon resonance in their extinction spectra in the visible range. The resonance wavelength depends on the periodicity and dimensions of the nanodots. Bulk refractive index measurements and model biosensing of streptavidin were successfully performed based on the plasmon resonance shift induced by local refractive index change when biomolecules are adsorbed on the nanodots. These results demonstrate the potential of stencil lithography for the realization of plasmon-based biosensing devices.

Refractive-index-based screening of membrane-protein-mediated transfer across biological membranes

Numerous membrane-transport proteins are major drug targets, and therefore a key ingredient in pharmaceutical development is the availability of reliable, efficient tools for membrane transport characterization and inhibition. Here, we present the use of evanescent-wave sensing for screening of membrane-protein-mediated transport across lipid bilayer membranes. This method is based on a direct recording of the temporal variations in the refractive index that occur upon a transfer-dependent change in the solute concentration inside liposomes associated to a surface plasmon resonance (SPR) active sensor surface. The applicability of the method is demonstrated by a functional study of the aquaglyceroporin PfAQP from the malaria parasite Plasmodium falciparum. Assays of the temperature dependence of facilitated diffusion of sugar alcohols on a single set of PfAQP-reconstituted liposomes reveal that the activation energies for facilitated diffusion of xylitol and sorbitol are the same as that previously measured for glycerol transport in the aquaglyceroporin of Escherichia coli (5 kcal/mole). These findings indicate that the aquaglyceroporin selectivity filter does not discriminate sugar alcohols based on their length, and that the extra energy cost of dehydration of larger sugar alcohols, upon entering the pore, is compensated for by additional hydrogen-bond interactions within the aquaglyceroporin pore.

High-performance biosensing using arrays of plasmonic nanotubes

We show that aligned gold nanotube arrays capable of supporting plasmonic resonances can be used as high performance refractive index sensors in biomolecular binding reactions. A methodology to examine the sensing ability of the inside and outside walls of the nanotube structures is presented. The sensitivity of the plasmonic nanotubes is found to increase as the nanotube walls are exposed, and the sensing characteristic of the inside and outside walls is shown to be different. Finite element simulations showed good qualitative agreement with the observed behavior. Free standing gold nanotubes displayed bulk sensitivities in the region of 250 nm per refractive index unit and a signal-to-noise ratio better than 1000 upon protein binding which is highly competitive with state-of-the-art label-free sensors.

Improving the limit of detection of nanoscale sensors by directed binding to high-sensitivity areas

The revelation of protein-protein interactions is one of the main preoccupations in the field of proteomics. Nanoplasmonics has emerged as an attractive surface-based technique because of its ability to sense protein binding under physiological conditions in a label-free manner. Here, we use short-range ordered holes with a diameter of approximately 150 nm and a depth of approximately 50 nm as a nanoplasmonic template. A approximately 40 nm high cylindrical region of Au is exposed on the walls of the holes only, while the rest of the surface consists of TiO2. Since the sensitivity is confined to the nanometric holes, the use of two different materials for the sensor substrate offers the opportunity to selectively bind proteins to the most sensitive Au regions on the sensor surface. This was realized by applying material-selective poly(ethylene glycol)-based surface chemistry, restricting NeutrAvidin binding to surface-immobilized biotin on the Au areas only. We show that under mass-transport limited conditions (low nM bulk concentrations), the initial time-resolved response of uptake could be increased by a factor of almost 20 compared with the case where proteins were allowed to bind on the entire sensor surface and stress the generic relevance of this concept for nanoscale sensors. In the scope of further optimizing the limit of detection (LOD) of the sensor structure, we present finite-element (FE) simulations to unravel spatially resolved binding rates. These revealed that the binding rates in the holes occur in a highly inhomogeneous manner with highest binding rates observed at the upper rim of the holes and the lowest rates observed at the bottom of the holes. By assuming a plasmonic field distribution with enhanced sensitivity at the Au-TiO2 interface, the FE simulations reproduced the experimental findings qualitatively.

Refractometric sensing using propagating versus localized surface plasmons: a direct comparison

We present a direct experimental comparison between the refractive index sensing capabilities of localized surface plasmon resonances (LSPRs) in gold nanodisks and propagating surface plasmon resonances (SPRs) on 50 nm gold films. The comparison is made using identical experimental conditions, and for the same resonance wavelength, lambda(SP) congruent with 700 nm. Biosensing experiments with biotin-avidin coupling reveal that the two sensing platforms have very similar performance, despite a superior bulk refractive index sensing figure of merit for the SPR sensor. The results demonstrate that LSPR sensing based on simple transmission or reflection measurements is a highly competitive technique compared to the traditional SPR sensor.