Bacterial DNA Recognition by SERS Active Plasma-Coupled Nanogold.

It is shown that surface-enhanced Raman spectroscopy (SERS) can identify bacteria based on their genomic DNA composition, acting as a "sample-distinguishing marker". Successful spectral differentiation of bacterial species was accomplished with nanogold aggregates synthesized through single-step plasma reduction of the ionic gold-containing vapored precursor. A high enhancement factor (EF = 107) in truncated coupled plasmonic particulates allowed SERS-probing at nanogram sample quantities. Simulations confirmed the occurrence of the strongest electric field confinement within nanometric gaps between gold dimers/chains from where the molecular fingerprints of bacterial DNA fragments gained photon scattering enhancement. The most prominent Raman modes linked to fundamental base-pair molecular vibrations were deconvoluted and used to proceed with nitrogenous base content estimation. The genomic composition (percentage of guanine-cytosine and adenine-thymine) was successfully validated by third-generation sequencing using nanopore technology, further proving that the SERS technique can be employed to swiftly specify bioentities by the discriminative principal-component statistical approach.

Label-Free Mycotoxin Raman Identification by High-Performing Plasmonic Vertical Carbon Nanostructures.

Mycotoxins are widespread chemical entities in the agriculture and food industries that can induce cancer growth and immune deficiency, posing a serious health threat for humankind. These hazardous compounds are produced naturally by various molds (fungi) that contaminate different food products and can be detected in cereals, nuts, spices, and other food products. However, their detection, especially at minimally harmful concentrations, remains a serious analytical challenge. This research shows that high-performing plasmonic substrates (analytical enhancement factor = 5 × 107 ) based on plasma-grown vertical hollow carbon nanotubes can be applied for immediate detection of the most toxic mycotoxins. Due to excellent sensitivity allowing operation at ppb concentrations, it is possible to collect vibrational fingerprints of aflatoxin B1 , zearalenone, alternariol, and fumonisin B1 , highlighting the key spectral differences between them using principal component analysis. Regarding time-consuming conventional methods, including thin-layer chromatography, gas chromatography, high-performance liquid chromatography, and enzyme-linked immunosorbent assay, the designed surface-enhanced Raman spectroscopy substrates provide a clear roadmap to reducing the detection time-scale of mycotoxins down to seconds.

Phase unwrapping using the extracted degree of coherence and phase from phase shifting interferometry systems.

Current phase unwrapping methods for non-scanning interferometry systems with one wavelength are not robust in the presence of high steps while still having a limited step height and range using two wavelengths configurations. Here, a new phase unwrapping method is proposed, allowing imaging steps with a height up to 15 times the wavelength using one wavelength or up to 1500 times using two wavelengths. It is based on a one-time computational model fitting of calibration measurements that allows to extract the degree of coherence and phase from two phase-shifted images per wavelength, perform phase unwrapping and accurately reconstruct the 3D structure of the sample. The proposed method has a nanometric axial accuracy and can operate in real-time. The algorithms and methodology for one and two wavelengths are presented and confirmed experimentally.

Two-color optically addressed spatial light modulator as a generic spatiotemporal system.

Nonlinear spatiotemporal systems are the basis for countless physical phenomena in such diverse fields as ecology, optics, electronics, and neuroscience. The canonical approach to unify models originating from different fields is the normal form description, which determines the generic dynamical aspects and different bifurcation scenarios. Realizing different types of dynamical systems via one experimental platform that enables continuous transition between normal forms through tuning accessible system parameters is, therefore, highly relevant. Here, we show that a transmissive, optically addressed spatial light modulator under coherent optical illumination and optical feedback coupling allows tuning between pitchfork, transcritical, and saddle-node bifurcations of steady states. We demonstrate this by analytically deriving the system's dynamical equations in correspondence to the normal forms of the associated bifurcations and confirm these results via extensive numerical simulations. Our model describes a nematic liquid crystal device using nano-dimensional dichalcogenide (a-As 2S 3) glassy thin films as photo sensors and alignment layers, and we use device parameters obtained from experimental characterization. Optical coupling, for example, using diffraction, holography, or integrated unitary maps allows implementing a variety of system topologies of technological relevance for neural networks and potentially Ising or XY-Hamiltonian models with ultralow energy consumption.

Resonant Subwavelength and Nano-Scale Grating Structures for Biosensing Application: A Comparative Study.

Resonant-based sensors are attractive optical structures due to the easy detection of shifts in the resonance location in response to variations in the analyte refractive index (RI) in comparison to non-resonant-based sensors. In particular, due to the rapid progress of nanostructures fabrication methods, the manufacturing of subwavelength and nano-scale gratings in a large area and at a low cost has become possible. A comparative study is presented involving analysis and experimental work on several subwavelength and nanograting structures, highlighting their nano-scale features' high potential in biosensing applications, namely: (i) Thin dielectric grating on top of thin metal film (TDGTMF), which can support the excitation of extended surface plasmons (ESPs), guided mode resonance, or leaky mode; (ii) reflecting grating for conventional ESP resonance (ESPR) and cavity modes (CMs) excitation; (iii) thick dielectric resonant subwavelength grating exhibiting guided mode resonance (GMR) without a waveguide layer. Among the unique features, we highlight the following: (a) Self-referenced operation obtained using the TDGTMF geometry; (b) multimodal operation, including ESPR, CMs, and surface-enhanced spectroscopy using reflecting nanograting; (c) phase detection as a more sensitive approach in all cases, except the case of reflecting grating where phase detection is less sensitive than intensity or wavelength detection. Additionally, intensity and phase detection modes were experimentally demonstrated using off-the-shelf grating-based optical compact discs as a low-cost sensors available for use in a large area. Several flexible designs are proposed for sensing in the visible and infrared spectral ranges based on the mentioned geometries. In addition, enhanced penetration depth is also proposed for sensing large entities such as cells and bacteria using the TDGTMF geometry.

Parallel spectroscopic ellipsometry for ultra-fast thin film characterization.

Spectroscopic ellipsometer (SE) is an essential optical metrology tool commonly used to characterize thin films and monitor fabrication processes. However, it relies on mechanical rotation of a polarizer or a photo-elastic phase modulator which are limited in speed and prone to errors when handling dynamic processes. The constant trend of micro-electronics dimensions shrinkage and increase of the wafer area necessitates faster and more accurate tools. A fast SE design based on parallel snapshot detection of three signals at different polarizations is proposed and demonstrated. Not relying on mechanical rotation nor serial phase modulation, it is more accurate and can reach acquisition rates of hundreds of measurements per second.

Tunable filter and modulator with controlled bandwidth and wide dynamic range based on planar thin films structure.

Tunable narrowband spectral filters with high throughput and wide dynamic range are in high demand for many applications, however, a cost is usually associated with the filter narrowing either in the dynamic range, in the throughput or the manufacturability. Here it is shown for the first time that using the coupling between waveguide and lossy modes (LMs) in lossy ultrathin films through thin film coupling layer it is possible to obtain a reflection peak with controllable width (sub-Angstroms till tens of nm) and tunability over wide spectral range (>500nm in the visible and near infrared). The excitation of broadband LM is enabled using an ultrathin absorptive layer with high imaginary to real part ratio of the dielectric constant (i.e 6nm of Cr). The wider dynamic range and higher contrast are observed more with TE polarization than TM. The tuning is achieved by incidence angle scan of few degrees or by modulating the waveguide layer from the visible till the near infrared and in principle it can be designed to operate in any spectral range. Such a thin waveguide layer can allow tuning at ultrahigh speed using conventional electrooptic, magnetooptic, piezoelectric or thermooptic materials using relatively low external fields. The tuning sensitivity and range depend strongly on the waveguide layer thickness and the refractive index mismatch between the waveguide and the coupling layer. Under small index mismatch new peaks are seen via Rabi type splitting with gaps as high as 700nm or more, thus exhibiting ultrahigh tuning with negative sensitivity.

Broadband ellipso-polarimetric camera utilizing tunable liquid crystal achromatic waveplate with improved field of view.

An ellipso-polarimetric camera integrated with improved field of view tunable achromatic waveplate (AWP) over wide spectral band based on nematic liquid crystal retarders is presented. The AWP operates as half, quarter and full waveplate over a wide range of 430-780nm and wide field of view. The proposed analysis proved that capturing images at these modes is sufficient to extract the ellipsometric parameters: sin(2ψ), cos(Δ) and the Stokes parameters S1 and S3, besides showing the relations in between. Transmission and reflection modes setups are demonstrated in addition to an ellipso-polarimetric smartphone camera. The results show for the first time superiority of cos(Δ) images in which prominent contrast and fine details appear even with scattering objects and higher immunity to device errors. Biometric, remote sensing and archeological improved imaging applications are demonstrated.

Novel easy to fabricate liquid crystal composite with potential for electrically or thermally controlled transparency windows.

Switchable liquid crystal (LC) composites are a unique and attractive class of functional materials due to their extensive use in various applications including smart and privacy windows. Demand for developing smart windows with good switchable performance has steadily increasing in the past decades due to their importance in energy saving. Herein, we present the use of novel and highly active switchable LC composite material-octadecanol-doped LC-prepared via a facile, low-cost, and scalable process, for thermally or electrically controlled transparency windows. A systematic study of the switchable behavior reveals the formation of a reversible molecular arrangement between the LC and the octadecanol, which allows control of the transparency through scattering modulation of the device by voltage or temperature. The devices fabricated by sandwiching the LC composite material between two ITO-covered glass slides present switchable performance with high potential for cost-effective utilization in various applications, such as light shutters, smart or privacy windows.

Training artificial neural network for optimization of nanostructured VO2-based smart window performance.

In this work, we apply for the first time a machine learning approach to design and optimize VO2 based nanostructured smart window performance. An artificial neural network was trained to find the relationship between VO2 smart window structural parameters and performance metrics-luminous transmittance (Tlum) and solar modulation (ΔTsol), calculated by first-principle electromagnetic simulations (FDTD method). Once training was accomplished, the combination of optimal Tlum and ΔTsol was found by applying classical trust region algorithm on the trained network. The proposed method allows flexibility in definition of the optimization problem and provides clear uncertainty limits for future experimental realizations.

Phase-shifted polarimetric surface plasmon resonance sensor using a liquid crystal retarder and a diverging beam.

A simple phase-shifted polarimetric scheme to extract light polarization changes induced by the sample in surface plasmon resonance (SPR) sensors is presented. The proposed method is based on the conventional Kretschmann-Raether configuration in the angular diverging beam mode using a single wavelength and a variable liquid crystal retarder. An experimental demonstration was performed using different aqueous solutions of ethylene glycol showing a sensitivity of 118.7 deg/refractive-index-unit (RIU) and a detection limit of 1.03×10-7 RIU.

Highly sensitive liquid crystal optically addressed spatial light modulator for infrared-to-visible image up-conversion.

A liquid crystal optically addressed spatial light modulator based on an InGaAs photodiode array operating at low light levels is investigated in the short wavelength infrared (SWIR) spectral band to serve as a SWIR-to-visible imaging upconversion device. It consists of InGaAs/InP heterojunction photodetectors array sandwiched with a nematic LC layer. The photodiode array is composed of a 640×512 InGaAs/Inp heterojunctions, grown on InP substrate with a 15 µm pitch. Full up-converted visible images in stills and video modes were demonstrated with SWIR light intensities as low as 70 nW/cm2 or less than pW/pixel. The influence of operation frequency on the performance of the device was found theoretically and experimentally to be crucial for a proper operation of the device. The optimum sensitivity and contrast of the device was found at a frequency around 70 Hz. To the best of our knowledge, this is the first time that such a high performance upconversion device is presented and that actual visible images are obtained.

Improved Detection of Plasmon Waveguide Resonance Using Diverging Beam, Liquid Crystal Retarder, and Application to Lipid Orientation Determination.

Plasmon waveguide resonance (PWR) sensors exhibit narrow resonances at the two orthogonal polarizations, transverse electric (TE) and transverse magnetic (TM), which are narrower by almost an order of a magnitude than the standard surface plasmon resonance (SPR), and thus the figure of merit is enhanced. This fact is useful for measuring optical anisotropy of materials on the surface and determining the orientation of molecules with high resolution. Using the diverging beam approach and a liquid crystal retarder, we present experimental results by simultaneous detection of TE and TM polarized resonances as well as using fast higher contrast serial detection with a variable liquid crystal retarder. While simultaneous detection makes the system simpler, a serial one has the advantage of obtaining a larger contrast of the resonances and thus an improved signal-to-noise ratio. Although the sensitivity of the PWR resonances is smaller than the standard SPR, the angular width is much smaller, and thus the figure of merit is improved. When the measurement methodology has a high enough angular resolution, as is the one presented here, the PWR becomes advantageous over other SPR modes. The possibility of carrying out exact numerical simulations for anisotropic molecules using the 4 × 4 matrix approach brings another advantage of the PWR over SPR on the possibility of extracting the orientation of molecules adsorbed to the surface. High sensitivity of the TE and TM signals to the anisotropic molecules orientation is found here, and comparison to the experimental data allowed detection of the orientation of lipids on the sensor surface. The molecular orientations cannot be fully determined from the TM polarization alone as in standard SPR, which underlines the additional advantage of the PWR technique.

Resonant Grating without a Planar Waveguide Layer as a Refractive Index Sensor.

Dielectric grating-based sensors are usually based on the guided mode resonance (GMR) obtained using a thin planar waveguide layer (PWL) adjacent to a thin subwavelength grating layer. In this work, we present a detailed investigation of thick subwavelength dielectric grating structures that exhibit reflection resonances above a certain thickness without the need for the waveguide layer, showing great potential for applications in biosensing and tunable filtering. Analytic and numerical results are thoroughly discussed, as well as an experimental demonstration of the structure as a chemical sensor in the SWIR (short wave infrared) spectral range (1200-1800 nm). In comparison to the GMR structure with PWL, the thick grating structure has several unique properties: (i) It gives higher sensitivity when the spaces are filled, with the analyte peaking at certain space values due to an increase in the interaction volume between the analyte and the evanescent optical field between the grating lines; (ii) the TM (transverse magnetic) resonance, in certain cases, provides a better figure of merit; (iii) the sensitivity increases as the grating height increases; (iii) the prediction of the resonance locations based on the effective medium approximation does not give satisfactory results when the grating height is larger than a certain value, and the invalidity becomes more severe as the period increases; (iv) a sudden increase in the Q-factor of the resonance occurs at a specific height value accompanied by the high local field enhancement (~103) characteristic of a nano-antenna type pattern. Rigorous numerical simulations of the field distribution are presented to explain the different observed phenomena.

Fast Method for Liquid Crystal Cell Spatial Variations Estimation Based on Modeling the Spectral Transmission.

Liquid crystal phase retarders are utilized by photonic devices and imaging systems for various applications, such as tunable filtering, light modulation, polarimetric imaging, remote sensing and quality inspection. Due to technical difficulties in the manufacturing process, these phase retarders may suffer from spatial non-uniformities, which degrade the performance of the systems. These non-uniformities can be characterized by measuring the spectral transmission at each voltage and each point on the liquid crystal cell, which is time consuming. In this work, we present a new fast and simple method for measuring and computationally estimating the spatial variations of a liquid crystal phase retarder with planar alignment. The method is based on measuring the spectral transmission of the phase retarder at several spatial locations and estimating it at others. The experimental results show that the method provides an accurate spatial description of the phase retarder and can be employed for calibrating relevant systems.

Point-of-Care Surface Plasmon Resonance Biosensor for Stroke Biomarkers NT-proBNP and S100ß Using a Functionalized Gold Chip with Specific Antibody.

Surface-plasmon-resonance (SPR) is a quantum-electromagnetic phenomenon arising from the interaction of light with free electrons at a metal-dielectric interface. At a specific angle/wavelength of light, the photon's energy is transferred to excite the oscillation of the free electrons on the surface. A change in the refractive-index (RI) may occur, which is influenced by the analyte concentration in the medium in close contact with the metal surface. SPR has been widely used for the detection of gaseous, liquid, or solid samples. In this study, a functionalized specific SPR chip was designed and used in a novel point-of-care SPR module (PhotonicSys SPR H5) for the detection of the stroke biomarkers NT-proBNP and S100ß. These biomarkers have proven to be good for stroke diagnosis, with sensitivity and specificity of >85%. Specific detection was done by binding a biomolecular-recognizing antibody onto the Au SPR-chip. Detection was tested in water and plasma samples. NT-proBNP and S100ß were detected in a range of concentrations for stroke, from 0.1 ng/mL to 10 ng/mL. The RI of the blank plasma samples was 1.362412, and the lowest concentration tested for both biomarkers showed a prominent shift in the RI signal (0.25 ng/mL NT-proBNP (1.364215) and S100ß (1.364024)). The sensor demonstrated a clinically relevant limit-of-detection of less than ng/mL.

Enhanced intrinsic fluorescence from carboxidized nano-sculptured thin films of silver and their application for label free dual detection of glycated hemoglobin.

Enhanced intrinsic fluorescence (~x103) from novel carboxidized nanosculptured thin films (CO-nSTFs) of silver is reported. The sources of intrinsic fluorescence, confirmed by X-ray photoelectron spectroscopy, are Ag2O grains and residual carbon formed on the outer layer of silver nSTFs when exposed to air, while the localized surface plasmons on silver nSTFs enhance this intrinsic fluorescence. The CO-nSTFs are optimized with respect to porosity for the maximum enhancement. A sensor developed by using the self-assembled monolayer technique on optimized CO-nSTF is used for the label free detection of glycated hemoglobin, performed by simultaneously using fluorescence imaging and spectroscopy. The specificity of the sensor is established from control experiments on hemoglobin. These novel nanorod like intrinsically fluorescent CO-nSTFs pose huge potential in label free biosensing, light sources, imaging and many more applications.

Three wavelengths parallel phase-shift interferometry for real-time focus tracking and vibration measurement.

Instantaneous high-resolution, wide-range focus tracking and a vibrometry system based on three-wavelength (3λ) parallel phase-shift polarization interferometry using three detectors per wavelength is presented. The system, implementing 3λ in-parallel three-phase-shift-interferometry channels for the first time, to the best of our knowledge, allows single-shot position tracking of motion profiles with extremely high velocities and vibration rates, long inter-step heights, and sub-nanometer scale accuracy. The system's simple design and algorithm presented here do not rely on active optical components, making its performance limited only by the detectors' bandwidths and allowing the setting up of a very high-performance low-cost vibrometry system.

Comparative study between polarimetric and intensity-based surface plasmon resonance sensors in the spectral mode.

There is a debate on whether phase measurement in surface plasmon resonance (SPR) sensors give better resolution than intensity measurement. In this work, we show that each one of the modes can give better resolution depending on the metal layer thickness chosen, as well as the available noise levels in the system. We propose a three point polarimetric approach to extract the ellipsometric parameters and phase information in the spectral mode. It is shown that the polarimetric measurement at its optimal thickness range gives up to seven-fold higher resolution than the intensity, especially at noise levels of off the shelf spectrometers. When noise levels are very low, the resolution in the two modes becomes nearly equal. The same is true when considering the whole SPR curve rather than single point detection. However, it is clearly shown both experimentally and theoretically that the polarimetric measurements at their optimal range give much better resolution than the intensity.

Optimized depth of field methodology using annular liquid crystal modulator assisted by image processing.

An optical-digital tunable depth of field (DOF) methodology is presented. The suggested methodology forms a fused image based on the sharpest similar depth regions from a set of source images taken with different phase masks. Each phase mask contains a different degree of DOF extension and is implemented by using an annular liquid crystal spatial light modulator, which consists of 16-ring electrodes positioned in the pupil plane. A detailed description of the optical setup and characterization of selected pupil phase masks as well as optimization of the binary phase mask for maximal DOF extension is presented. Experimental results are investigated both qualitatively and quantitatively. In addition, the algorithm's results are compared with those of some well-known fusion algorithms and proved its supremacy.