Multianalyte pin-printed biosensor arrays based on protein-doped xerogels

Single molecule protein patterning using hole mask colloidal lithography

The ability to manipulate single protein molecules on a surface is useful for interfacing biology with many types of devices in optics, catalysis, bioengineering, and biosensing. Control of distance, orientation, and activity at the single molecule level will allow for the production of on-chip devices with increased biological activity. Cost effective methodologies for single molecule protein patterning with tunable pattern density and scalable coverage area remain a challenge. Herein, Hole Mask Colloidal Lithography is presented as a bench-top colloidal lithography technique that enables a glass coverslip to be patterned with functional streptavidin protein onto patches from 15-200 nm in diameter with variable pitch. Atomic force microscopy (AFM) was used to characterize the size of the patterned features on the glass surface. Additionally, single-molecule fluorescence microscopy was used to demonstrate the tunable pattern density, measure binding controls, and confirm patterned single molecules of functional streptavidin.

Contact Pin-Printing onto Porous Silicon for Creating Microarrays with High Chemical Diversity

We explore the size and spatial microheterogeneity of contact pin-printed spots formed on porous silicon (pSi). Glycerol was contact printed at room temperature onto as-prepared, hydrogen-passivated pSi (ap-pSi) using 50 or 200 µm diameter solid pins. The pSi was then subjected to a strong oxidizing environment (gaseous O₃) and washed to remove the glycerol masks. The glycerol-free regions were converted to oxidized pSi (ox-pSi); the glycerol-coated regions were protected from O₃, but not entirely. The final array is described as circularly shaped "ap-pSi" regions on a field of ox-pSi. When comparing the areas outside and inside the glycerol-masked pSi spots, one finds dramatic differences in the Si-O-Si, SiH_x (x = 1-3) and O_ySiH_x (y, x = 1-3) levels with a spatially dependent continuum of compositions across the spot diameter. Experimental conditions could be adjusted to tune the final ap-pSi spot diameter and edge widths from 90 µm to 520 µm and 20 µm to 130 µm, respectively. The resulting ap-pSi spot diameter is explained by using molecular kinetic theory and time-dependent glycerol imbibement into the pSi within a one-dimensional Darcy's law model.

Optimizing Pin-Printed and Hydrosilylated Microarray Spot Density on Porous Silicon Platforms

Microarrays of spatially isolated chemistries on planar surfaces are powerful tools. An important factor in microarray technology is the density of chemically unique spots that can be formed per unit area. In this paper, we use contact pin-printing and evaluate how to decrease contact pin-printed spot diameters on porous silicon (pSi) platforms. Using hydrosilylation chemistry to covalently attach chemistries to the pSi surface, the variables studied included pSi porosity and surface polarity, active agent viscosity, and pin diameter. The spot characteristics were assessed by Fourier transform infrared spectroscopy (FT-IR) microscopy and X-ray photoelectron spectroscopy (XPS). Spot size decreased as pSi porosity increased in accordance with molecular kinetic theory and Darcy's law of imbibition. Increasing active agent viscosity and pin diameter (volume of printed agent) led to larger spot diameters in accordance with molecular kinetic theory and Darcy's law. Oxidizing the pSi with H2O2 increased the surface polarity but had no detectable impact on the spot size. This is consistent with formation of an oxide layer atop an unoxidized pSi sublayer.

A guided materials screening approach for developing quantitative sol-gel derived protein microarrays

Microarrays have found use in the development of high-throughput assays for new materials and discovery of small-molecule drug leads. Herein we describe a guided material screening approach to identify sol-gel based materials that are suitable for producing three-dimensional protein microarrays. The approach first identifies materials that can be printed as microarrays, narrows down the number of materials by identifying those that are compatible with a given enzyme assay, and then hones in on optimal materials based on retention of maximum enzyme activity. This approach is applied to develop microarrays suitable for two different enzyme assays, one using acetylcholinesterase and the other using a set of four key kinases involved in cancer. In each case, it was possible to produce microarrays that could be used for quantitative small-molecule screening assays and production of dose-dependent inhibitor response curves. Importantly, the ability to screen many materials produced information on the types of materials that best suited both microarray production and retention of enzyme activity. The materials data provide insight into basic material requirements necessary for tailoring optimal, high-density sol-gel derived microarrays.

High-throughput screening system for creating and assessing surface-modified porous silicon

A high-throughput screening system has been developed to rapidly produce, screen, and assess the usefulness of organically modified silane (ORMOSIL)-based xerogel films formed on the surface of porous silicon (pSi) surfaces. The ORMOSILs tested include methyltriethoxysilane, n-octyltriethoxysilane, n-hexyltriethoxysilane, n-propyltriethoxysilane, 2-cyanoethyltriethoxysilane, phenyltriethoxysilane, benzyltriethoxysilane, vinyltriethoxysilane, tetraethoxysilane, and hexafluoroethyltriethoxysilane. Xerogel microarrays were pin-printed on the surface of O(3) oxidized pSi using a computer-controlled robotic pin-printer. The fragile pSi required careful pin-printing parameter optimization to simultaneously ensure sufficient sol application and limit pin-induced damage. These multi-functional xerogel-pSi microarrays were exposed to harsh conditions (0.1 mM NaOH, 15 min) to determine the extent to which the xerogel protected the pSi. Microarray assessment included multispectral photoluminescence and infrared imaging. Results demonstrate that the more hydrophobic/nonpolar xerogel films (n-octyltriethoxysilane, n-hexyltriethoxysilane) protect the pSi surface the most and maintained the pSi photoluminescence. Also, unlike xerogel material doped with a reporter molecule, the uniformity of the printed feature plays a role in the protection of the pSi material underneath. Areas with thinner xerogel distributions allowed the permeation of NaOH whereas the thicker areas prohibit pSi exposure to NaOH.

CMOS direct time interval measurement of long-lived luminescence lifetimes

We describe a Complementary Metal-Oxide Semiconductor (CMOS) Direct Time Interval Measurement (DTIM) Integrated Circuit (IC) to detect the decay (fall) time of the luminescence emission when analyte-sensitive luminophores are excited with an optical pulse. The CMOS DTIM IC includes 14 × 14 phototransistor array, transimpedance amplifier, regulated gain amplifier, fall time detector, and time-to-digital convertor. We examined the DTIM system to measure the emission lifetime of oxygen-sensitive luminophores tris(4,7-diphenyl-1, 10-phenanthroline) ruthenium(II) ([Ru(dpp)(3)](2+)) encapsulated in sol-gel derived xerogel thin-films. The DTIM system fabricated using TSMC 0.35 μm process functions to detect lifetimes from 4 μs to 14.4 μs but can be tuned to detect longer lifetimes. The system provides 8-bit digital output proportional to lifetimes and consumes 4.5 mW of power with 3.3 V DC supply. The CMOS system provides a useful platform for the development of reliable, robust, and miniaturized optical chemical sensors.

Contact CMOS imaging of gaseous oxygen sensor array

We describe a compact luminescent gaseous oxygen (O₂) sensor microsystem based on the direct integration of sensor elements with a polymeric optical filter and placed on a low power complementary metal-oxide semiconductor (CMOS) imager integrated circuit (IC). The sensor operates on the measurement of excited-state emission intensity of O₂-sensitive luminophore molecules tris(4,7-diphenyl-1,10-phenanthroline) ruthenium(II) ([Ru(dpp)₃]²⁺) encapsulated within sol-gel derived xerogel thin films. The polymeric optical filter is made with polydimethylsiloxane (PDMS) that is mixed with a dye (Sudan-II). The PDMS membrane surface is molded to incorporate arrays of trapezoidal microstructures that serve to focus the optical sensor signals on to the imager pixels. The molded PDMS membrane is then attached with the PDMS color filter. The xerogel sensor arrays are contact printed on top of the PDMS trapezoidal lens-like microstructures. The CMOS imager uses a 32 × 32 (1024 elements) array of active pixel sensors and each pixel includes a high-gain phototransistor to convert the detected optical signals into electrical currents. Correlated double sampling circuit, pixel address, digital control and signal integration circuits are also implemented on-chip. The CMOS imager data is read out as a serial coded signal. The CMOS imager consumes a static power of 320 µW and an average dynamic power of 625 µW when operating at 100 Hz sampling frequency and 1.8 V DC. This CMOS sensor system provides a useful platform for the development of miniaturized optical chemical gas sensors.

CMOS Imaging of Temperature Effects on Pin-Printed Xerogel Sensor Microarrays

In this paper, we study the effect of temperature on the operation and performance of a xerogel-based sensor microarrays coupled to a complementary metal-oxide semiconductor (CMOS) imager integrated circuit (IC) that images the photoluminescence response from the sensor microarray. The CMOS imager uses a 32 × 32 (1024 elements) array of active pixel sensors and each pixel includes a high-gain phototransistor to convert the detected optical signals into electrical currents. A correlated double sampling circuit and pixel address/digital control/signal integration circuit are also implemented on-chip. The CMOS imager data are read out as a serial coded signal. The sensor system uses a light-emitting diode to excite target analyte responsive organometallic luminophores doped within discrete xerogel-based sensor elements. As a proto type, we developed a 3 × 3 (9 elements) array of oxygen (O2) sensors. Each group of three sensor elements in the array (arranged in a column) is designed to provide a different and specific sensitivity to the target gaseous O2 concentration. This property of multiple sensitivities is achieved by using a mix of two O2 sensitive luminophores in each pin-printed xerogel sensor element. The CMOS imager is designed to be low noise and consumes a static power of 320.4 μW and an average dynamic power of 624.6 μW when operating at 100-Hz sampling frequency and 1.8-V dc power supply.

CMOS Imaging of Pin-Printed Xerogel-Based Luminescent Sensor Microarrays

We present the design and implementation of a luminescence-based miniaturized multisensor system using pin-printed xerogel materials which act as host media for chemical recognition elements. We developed a CMOS imager integrated circuit (IC) to image the luminescence response of the xerogel-based sensor array. The imager IC uses a 26 × 20 (520 elements) array of active pixel sensors and each active pixel includes a high-gain phototransistor to convert the detected optical signals into electrical currents. The imager includes a correlated double sampling circuit and pixel address/digital control circuit; the image data is read-out as coded serial signal. The sensor system uses a light-emitting diode (LED) to excite the target analyte responsive luminophores doped within discrete xerogel-based sensor elements. As a prototype, we developed a 4 × 4 (16 elements) array of oxygen (O2) sensors. Each group of 4 sensor elements in the array (arranged in a row) is designed to provide a different and specific sensitivity to the target gaseous O2 concentration. This property of multiple sensitivities is achieved by using a strategic mix of two oxygen sensitive luminophores ([Ru(dpp)3]2+ and ([Ru(bpy)3]2+) in each pin-printed xerogel sensor element. The CMOS imager consumes an average power of 8 mW operating at 1 kHz sampling frequency driven at 5 V. The developed prototype system demonstrates a low cost and miniaturized luminescence multisensor system.

Direct-Dispense Polymeric Waveguides Platform for Optical Chemical Sensors

We describe an automated robotic technique called direct-dispense to fabricate a polymeric platform that supports optical sensor arrays. Direct-dispense, which is a type of the emerging direct-write microfabrication techniques, uses fugitive organic inks in combination with cross-linkable polymers to create microfluidic channels and other microstructures. Specifically, we describe an application of direct-dispensing to develop optical biochemical sensors by fabricating planar ridge waveguides that support sol-gel-derived xerogel-based thin films. The xerogel-based sensor materials act as host media to house luminophore biochemical recognition elements. As a prototype implementation, we demonstrate gaseous oxygen (O₂) responsive optical sensors that operate on the basis of monitoring luminescence intensity signals. The optical sensor employs a Light Emitting Diode (LED) excitation source and a standard silicon photodiode as the detector. The sensor operates over the full scale (0%-100%) of O₂ concentrations with a response time of less than 1 second. This work has implications for the development of miniaturized multi-sensor platforms that can be cost-effectively and reliably mass-produced.

Biofriendly sol-gel processing for the entrapment of soluble and membrane-bound proteins: toward novel solid-phase assays for high-throughput screening

The last decade has seen a revolution in the area of sol-gel-derived biomaterials since the demonstration that these materials can be used to encapsulate biological species such as enzymes, antibodies, and other proteins in a functional state. In particular, recent years have seen tremendous progress in the development of more "protein-friendly" sol-gel processing methods and their use for immobilization of delicate proteins, including key drug targets such as kinases and membrane-bound receptors. The latter example is particularly impressive, given the inherently low stability of membrane receptors and the need to stabilize an amphiphilic bilayer lipid membrane to maintain receptor function. In this Account, we provide an overview of the advances in biofriendly sol-gel processing methods developed in our research group and others and highlight recent accomplishments in the immobilization of both soluble and membrane-bound proteins, with particular emphasis on enzymes and membrane receptors that are drug targets. Emerging applications of sol-gel-entrapped proteins, focusing on the development platforms for high-throughput screening of small molecules, are also described.

Molecularly imprinted xerogels as platforms for sensing

Detection and quantification of analytes in clinical settings (e.g., routine blood testing), at home (e.g., glucose monitoring), in the field (e.g., environmental monitoring, war fighter protection, homeland security), and in the factory (e.g., worker health, beverage and food safety) is exceedingly challenging. Chemical sensors and biosensors have attracted considerable attention because of their perceived ability to meet these challenges. Chemical sensors exploit a recognition element in concert with a transduction strategy. When the recognition element is biological (e.g., antibody, aptamer, enzyme), the sensor is termed a biosensor. There is substantial literature on biosensing; however, there are compelling reasons for developing inexpensive, robust, and reusable alternatives for the expensive or unstable biorecognition elements. This Account summarizes recent research on designing and producing analyte-responsive materials based on molecularly imprinted xerogels.

A disposable two-throughput electrochemical immunosensor chip for simultaneous multianalyte determination of tumor markers

A disposable two-throughput immunosensor array was proposed for simultaneous electrochemical determination of tumor markers. The low-cost immunosensor array was fabricated simply using cellulose acetate membrane to co-immobilize thionine as a mediator and two kinds of antigens on two carbon electrodes of a screen-printed chip, respectively. With two simultaneous competitive immunoreactions the corresponding horseradish peroxidase (HRP) labeled antibodies were captured on the membranes, respectively, on which the immobilized thionine shuttled electrons between HRP and the electrodes for enzymatic reduction of H2O2 to produce detectable signals. The electrochemical and electronic cross-talks between the electrodes could be avoided, which was beneficial to the miniaturization of the array without considering the distance between immunosensors. Under optimal conditions the immunosensor array could be used for fast simultaneous electrochemical detection of CA 19-9 and CA 125 with the limits of detection of 0.2 and 0.4 U/ml, respectively. The serum samples from clinic were assayed with the proposed method and the results were in acceptable agreement with the reference values. The proposed method for preparation of immunosensor array could be conveniently used for fabrication of disposable electrochemical biochip with high throughput and possessed the potential of mass production and commercialization.

Design of fluorescent materials for chemical sensing

There is an enormous demand for chemical sensors for many areas and disciplines. High sensitivity and ease of operation are two main issues for sensor development. Fluorescence techniques can easily fulfill these requirements and therefore fluorescent-based sensors appear as one of the most promising candidates for chemical sensing. However, the development of sensors is not trivial; material science, molecular recognition and device implementation are some of the aspects that play a role in the design of sensors. The development of fluorescent sensing materials is increasingly captivating the attention of the scientists because its implementation as a truly sensory system is straightforward. This critical review shows the use of polymers, sol-gels, mesoporous materials, surfactant aggregates, quantum dots, and glass or gold surfaces, combined with different chemical approaches for the development of fluorescent sensing materials. Representative examples have been selected and they are commented here.

O(2)-responsive chemical sensors based on hybrid xerogels that contain fluorinated precursors

We report the development and analytical figures of merit associated with several new O(2)-responsive sensor materials. These new sensing materials are formed by sequestering the luminophore tris(4,7-diphenyl-1,10-phenanthroline)ruthenium(II) ([Ru(dpp)(3)](2+)) within hybrid xerogels that are composed of two of the following methoxysilanes: tetramethoxysilane, n-propyl-trimethoxysilane, 3,3,3-trifluoropropyl-trimethoxysilane, phenethyl-trimethoxysilane, and pentafluorophenylpropyl-trimethoxysilane. Steady-state and time-resolved luminescence measurements are used to investigate these hybrid xerogel-based sensor materials and elucidate the underlying reasons for the observed performance. The results show that many of the [Ru(dpp)(3)](2+)-doped composites form visually uniform, crack-free xerogel films that can be used to construct O(2) sensors that have linear calibration curves and excellent long-term stability. To the best of our knowledge, the [Ru(dpp)(3)](2+)-doped fluorinated hybrid xerogels also exhibit the highest O(2) sensitivity of any reported [Ru(dpp)(3)](2+)-based sensor platform.

Templated xerogels as platforms for biomolecule-less biomolecule sensors

We report on a new sensor strategy that we have termed protein imprinted xerogels with integrated emission sites (PIXIES). The PIXIES platform is completely self-contained, and it achieves analyte recognition without a biorecognition element (e.g., antibody). The PIXIES relies upon sol-gel-derived xerogels, molecular imprinting, and the selective installation of a luminescent reporter molecule directly within the molecularly imprint site. In operation the templated xerogel selectively recognizes the target analyte, the analyte binds to the template site, and binding causes a change in the physicochemical properties within the template site that are sensed and reported by the luminescent probe molecule. We report the PIXIES analytical figures of merit for and compare these results to a standard ELISA. For human interleukin-1 the PIXIES-based sensor elements exhibited the following analytical figures of merit: (i) approximately 2 pg/mL detection limits; (ii) <2 min response times; (iii) >85 selectivity; (iv) <6% R.S.D. long term drift over 16 weeks of ambient storage; (v) >95% reversibility after more than 25 cycles; and (vi) >85% recoveries on spiked samples.

Simultaneous determination of renal clinical analytes in serum using hydrolase- and oxidase-encapsulated optical array biosensors

An optical array biosensor encapsulated with hydrolase and oxidoreductase using sol-gel immobilization technique has been fabricated for simultaneous analysis and screening of multiple samples to determine the presence of multianalytes which are clinically important in relation to renal failure. Urease and creatinine deiminase were used to detect urea and creatinine, while glucose oxidase and uricase were coimmobilized with horseradish peroxidase to quantify glucose and uric acid. Moreover, the concentrations of analytes in fetal calf serum were measured and quantified using the developed sensing system. The array biosensor showed good specificity for the simultaneous analysis of multiple samples for multianalytes without obvious cross-interference. The analytical ranges of the four analytes were between 0.01 and 10mM with detection limits of 2.5-80 microM. High precision with relative standard deviations of 3.8-9.2% (n=45) was also demonstrated. The reproducibility of array-to-array in 3 consecutive months was 5.4% (n=3). Moreover, the concentrations of analytes in fetal calf serum were 5.9 mM for urea, 0.13 mM for creatinine, 3.3mM for glucose, and 0.15 mM for uric acid, which were in good agreement with results obtained using the traditional spectroscopic methods. These results demonstrate the first use of a sol-gel-derived optical array biosensor for simultaneous analysis of multiple samples for the presence of multiple clinically important renal analytes.

Simultaneous determination of pH, urea, acetylcholine and heavy metals using array-based enzymatic optical biosensor

An array-based optical biosensor for the simultaneous analysis of multiple samples in the presence of unrelated multi-analytes was fabricated. Urease and acetylcholinesterase (AChE) were used as model enzymes and were co-entrapped with the sensing probe, FITC-dextran, in the sol-gel matrix to measure pH, urea, acetylcholine (ACh) and heavy metals (enzyme inhibitors). Environmental and biological samples spiked with metal ions were also used to evaluate the application of the array biosensor to real samples. The biosensor exhibited high specificity in identifying multiple analytes. No obvious cross-interference was observed when a 50-spot array biosensor was used for simultaneous analysis of multiple samples in the presence of multiple analytes. The sensing system can determine pH over a dynamic range from 4 to 8.5. The limits of detection (LODs) of 2.5-50 microM with a dynamic range of 2-3 orders of magnitude for urea and ACh measurements were obtained. Moreover, the urease-encapsulated array biosensor was used to detect heavy metals. The analytical ranges of Cd(II), Cu(II), and Hg(II) were between 10 nM and 100 mM. When real samples were spiked with heavy metals, the array biosensor also exhibited potential effectiveness in screening enzyme inhibitors.