Peptide-Based Capture of Chikungunya Virus E2 Protein Using Porous Silicon Biosensor

The detection of pathogens presents specific challenges in ensuring that biosensors remain operable despite exposure to elevated temperatures or other extreme conditions. The most vulnerable component of a biosensor is typically the bioreceptor. Accordingly, the robustness of peptides as bioreceptors offers improved stability and reliability toward harsh environments compared to monoclonal antibodies that may lose their ability to bind target molecules after such exposures. Here, we demonstrate peptide-based capture of the Chikungunya virus E2 protein in a porous silicon microcavity biosensor at room temperature and after exposure of the peptide-functionalized biosensor to high temperature. Contact angle measurements, attenuated total reflectance-Fourier transform infrared spectra, and optical reflectance measurements confirm peptide functionalization and selective E2 protein capture. This work opens the door for other pathogenic biomarker detection using peptide-based capture agents on porous silicon and other surface-based sensor platforms.

Surface-Initiated, Catechol-Containing Polymer Films for Effective Chelation of Aluminum Ions

We present a new route for obtaining surface-tethered polymer films containing pendant catechol functional groups via surface-initiated activators regenerated by electron-transfer atom-transfer radical polymerization (SI-ARGET ATRP) of glycidyl methacrylate (GMA) and post-polymerization modification of the resulting poly(glycidyl methacrylate) (pGMA) films with dopamine. This method enables a high degree of functionalization of pGMA films with catechol groups at a controlled level, depending on the duration of the post-polymerization modification reaction. The dopamine-pGMA films readily absorbs Al³⁺ and Zn²⁺ ions, as verified by quartz crystal microbalance with dissipation (QCM-D) under continuous flow conditions, and demonstrates a four-fold molar selectivity to Al³⁺ over Zn²⁺. The ions desorb from the films upon rinsing with pure deionized (DI) water, which regenerates the catechol sites in the dopamine-pGMA film. Subsequent exposure to metal ions after rinsing steps yields reproducible levels of loading.

Co-Poly(ionic liquid) Films via Anion Exchange for the Continuous Tunability of Ion Transport and Wettability

This manuscript details a novel and simple approach to achieve surface-tethered co-poly(ionic liquid) (coPIL) films through the exchange of the resident anion of a poly(ionic liquid) (PIL) film with two or more anions. Initially, surface-tethered PIL films were prepared by the surface-initiated ring-opening metathesis polymerization of the ionic liquid monomer 3-[(bicyclo[2.2.1]hept-5-en-2-yl)methyl]-1,2-dimethylimidazol-3-ium hexafluorophosphate ([N1-dMIm][PF6]) whose PF6 - anion was easily interchanged with aqueous solutions containing a binary mixture of the PF6 - anion, along with perchlorate (ClO4 -) or bis(fluorosulfonyl)imide (FSI-) anions. The binary mole fraction of each anion in the film was determined from the infrared spectra of the coPIL films. The thermodynamically driven anion selectivity for exchange from the liquid phase into the coPIL films was determined to follow the order ClO4 - < PF6 - < FSI-. The aqueous wettability of p[N1-dMIm] coPIL films containing both the PF6 - and ClO4 - anions (p[N1-dMIm][PF6][ClO4]) was quantified by contact angle goniometry with the observation that the surface showed an enrichment in the ClO4 - anion compared to the average binary anion mole fraction of ClO4 - in the film (y ClO4 - ). The rate of ion transport through the p[N1-dMIm][PF6][ClO4] coPIL films, quantified by electrochemical impedance spectroscopy, linearly depends on the binary anion mole fraction of ClO4 - in solution (x ClO4 - ), enabling continuous tunability by over three orders of magnitude for ion conductivity in the coPIL films.

Trypsin and MALDI matrix pre-coated targets simplify sample preparation for mapping proteomic distributions within biological tissues by imaging mass spectrometry

Prefabricated surfaces containing α-cyano-4-hydroxycinnamic acid and trypsin have been developed to facilitate enzymatic digestion of endogenous tissue proteins prior to matrix-assisted laser desorption/ionization (MALDI) imaging mass spectrometry (IMS). Tissue sections are placed onto slides that were previously coated with α-cyano-4-hydroxycinnamic acid and trypsin. After incubation to promote enzymatic digestion, the tissue is analyzed by MALDI IMS to determine the spatial distribution of the tryptic fragments. The peptides detected in the MALDI IMS dataset were identified by Liquid chromatography-tandem mass spectrometry/mass spectrometry. Protein identification was further confirmed by correlating the localization of unique tryptic fragments originating from common parent proteins. Using this procedure, proteins with molecular weights as large as 300 kDa were identified and their distributions were imaged in sections of rat brain. In particular, large proteins such as myristoylated alanine-rich C-kinase substrate (29.8 kDa) and spectrin alpha chain, non-erythrocytic 1 (284 kDa) were detected that are not observed without trypsin. The pre-coated targets simplify workflow and increase sample throughput by decreasing the sample preparation time. Further, the approach allows imaging at higher spatial resolution compared with robotic spotters that apply one drop at a time. Copyright © 2016 John Wiley & Sons, Ltd.

Comparative Kinetic Analysis of Closed-Ended and Open-Ended Porous Sensors

Efficient mass transport through porous networks is essential for achieving rapid response times in sensing applications utilizing porous materials. In this work, we show that open-ended porous membranes can overcome diffusion challenges experienced by closed-ended porous materials in a microfluidic environment. A theoretical model including both transport and reaction kinetics is employed to study the influence of flow velocity, bulk analyte concentration, analyte diffusivity, and adsorption rate on the performance of open-ended and closed-ended porous sensors integrated with flow cells. The analysis shows that open-ended pores enable analyte flow through the pores and greatly reduce the response time and analyte consumption for detecting large molecules with slow diffusivities compared with closed-ended pores for which analytes largely flow over the pores. Experimental confirmation of the results was carried out with open- and closed-ended porous silicon (PSi) microcavities fabricated in flow-through and flow-over sensor configurations, respectively. The adsorption behavior of small analytes onto the inner surfaces of closed-ended and open-ended PSi membrane microcavities was similar. However, for large analytes, PSi membranes in a flow-through scheme showed significant improvement in response times due to more efficient convective transport of analytes. The experimental results and theoretical analysis provide quantitative estimates of the benefits offered by open-ended porous membranes for different analyte systems.

Standard Reticle Slide To Objectively Evaluate Spatial Resolution and Instrument Performance in Imaging Mass Spectrometry

Spatial resolution is a key parameter in imaging mass spectrometry (IMS). Aside from being a primary determinant in overall image quality, spatial resolution has important consequences on the acquisition time of the IMS experiment and the resulting file size. Hardware and software modifications during instrumentation development can dramatically affect the spatial resolution achievable using a given imaging mass spectrometer. As such, an accurate and objective method to determine the working spatial resolution is needed to guide instrument development and ensure quality IMS results. We have used lithographic and self-assembly techniques to fabricate a pattern of crystal violet as a standard reticle slide for assessing spatial resolution in matrix-assisted laser desorption/ionization (MALDI) IMS experiments. The reticle is used to evaluate spatial resolution under user-defined instrumental conditions. Edgespread analysis measures the beam diameter for a Gaussian profile and line scans measure an "effective" spatial resolution that is a convolution of beam optics and sampling frequency. The patterned crystal violet reticle was also used to diagnose issues with IMS instrumentation such as intermittent losses of pixel data.

Effect of DNA-induced corrosion on passivated porous silicon biosensors

This work examines the influence of charge density and surface passivation on the DNA-induced corrosion of porous silicon (PSi) waveguides in order to improve PSi biosensor sensitivity, reliability, and reproducibility when exposed to negatively charged DNA molecules. Increasing the concentration of either DNA probes or targets enhances the corrosion process and masks binding events. While passivation of the PSi surface by oxidation and silanization is shown to diminish the corrosion rate and lead to a saturation in the changes by corrosion after about 2 h, complete mitigation can be achieved by replacing the DNA probe molecules with charge-neutral PNA probe molecules. A model to explain the DNA-induced corrosion behavior, consistent with experimental characterization of the PSi through Fourier transform infrared spectroscopy and prism coupling optical measurements, is also introduced.

X-ray Damage to CF3CO2-Terminated Organic Monolayers on Si/Au: Principal Effect of Electrons

The relative importance of x-rays alone and of x-ray-generated primary and secondary electrons in damaging organic materials was explored by use of self-assembled monolayers (SAMs) on multilayer thin-film supports. The substrates were prepared by the deposit of thin films of silicon (0, 50, 100, and 200 angstroms) on thick layers of gold (2000 angstroms). These systems were supported on chromium-primed silicon wafers. Trifluoroacetoxy-terminated SAMs were assembled on these substrates, and the samples were irradiated with common fluxes of monochromatic aluminum K(alpha) x-rays. The fluxes and energy distributions of the electrons generated by interactions of the x-rays with the various substrates, however, differed. The substrates that emitted a lower flux of electrons exhibited a slower loss of fluorine from the SAMs. This observation indicated that the electrons-and not the x-rays themselves-were largely responsible for the damage to the organic monolayer.

Molecular dynamics simulation of oxygen transport through omega-alkoxy-n-alkanethiolate self-assembled monolayers on gold and copper

We have used molecular dynamics (MD) simulations to investigate the influences of the position of the ethereal oxygen on the ability of omega-alkoxy-n-alkanethiolate self-assembled monolayers (SAMs) to act as barrier films against through-film oxygen transport as relevant to the uses of these films in corrosion inhibition. Our MD simulations reveal that when the ether linkage is too close to the metal surface or to the chain ends, the free-energy barrier of SAMs toward oxygen diffusion was approximately 5 kJ/mol less than for a non-ether-containing n-alkanethiolate SAM having the same chain length. MD simulations show that SAMs having an ether linkage near a chain end contain a highly disordered terminal region. As a result, the SAMs allow a more rapid transport of oxygen across these monolayers than through n-alkanethiolate SAMs of similar length lacking the ether unit. Additionally, SAMs with the ether linkage close to the metal surface undergo a structural transition to an alternating flipped structure that is less crystalline compared to that of an n-alkanethiolate SAM. Together, these factors diminish the barrier properties of the omega-alkoxy-n-alkanethiolate SAMs below those for their unsubstituted analogues.

Ion-Exchange Purification of Proteins Using Magnetic Nanoclusters

Polymer-coated magnetic nanoclusters were used for recovery and purification of proteins from both model systems and cell-free Pichia pastoris fermentation broth. The nanoclusters exhibited extremely high capacity for proteins, up to 900 mg/mL adsorbent, and were recovered by high gradient magnetic separation (HGMS) at flow rates of up to 3,600 cm(3)/cm(2) h (flow rates up to 15,000 cm(3)/cm(2) h are possible). The nanoclusters were coated with a primary coating of poly(acrylic acid-co-styrenesulfonic acid-co-vinylsulfonic acid), which allowed both electrostatic and hydrophobic interactions with the protein to be used to enhance specificity for targeted products. With this dual mode separation, nearly pure protein could be recovered from complex mixtures, such as fermentation broth, in a few quick steps.

Odd-even variations in the wettability of n-alkanethiolate monolayers on gold by water and hexadecane: a molecular dynamics simulation study

Molecular dynamics (MD) simulations were performed to investigate odd-even chain length dependencies in the wetting properties of self-assembled monolayers (SAMs) of n-alkanethiols [CH3(CH2)n-1SH] on gold by water and hexadecane. Experimentally, the contact angle of hexadecane on the SAMs depends on whether n is odd or even, while contact angles for water show no odd-even dependence. Our MD simulations of this system included a microscopic droplet of either 256 water molecules or 60 hexadecane molecules localized on an n-alkanethiolate SAM on gold with either an even or odd chain length. Contact angles calculated for these nanoscopic droplets were consistent with experimentally observed macroscopic trends in wettability, namely, that hexadecane is sensitive to structural differences between odd- and even-chained SAMs while water is not. Structural properties for the SAMs (including features such as chain tilt, chain twist, and terminal methyl group tilt) were calculated during the MD simulations and used to generate IR spectra of these films that compared favorably with experimental spectra. MD simulations of SAMs in contact with slabs of water and hexadecane revealed that the effects of these solvents on the structure of the SAM was restricted to the chain terminus and had no effect on the inner structure of the SAM. The density profiles for water and hexadecane on the SAMs were different in that water displayed a significant depletion in its density at the liquid/SAM interface from its bulk value, while no such depletion occurred for hexadecane. This difference in contact may explain the lack of an odd-even variation in the wetting characteristics of water on these surfaces, because the water molecules are positioned further away from the surface and, therefore, are not sensitive to the structural differences in the average orientations for the terminal methyl groups in odd- and even-chained SAMs. In contrast, the differences in the wetting properties of hexadecane on the odd- and even-chained SAMs may reflect the closer proximity of these molecules to the SAM surface and a resulting greater sensitivity to the differences in the terminal methyl group orientations in the SAMs. SAM-solvent interaction energies were calculated during the MD simulations, yielding interaction energies that differed on the even- and odd-chained surfaces by approximately 10% for hexadecane and negligibly for water, in accord with estimates using experimental wetting results.

Rigid, superparamagnetic chains of permanently linked beads coated with magnetic nanoparticles. Synthesis and rotational dynamics under applied magnetic fields

An inexpensive and versatile approach is reported for the synthesis of monodisperse magnetoresponsive rods of desired diameter, length, and magnetic susceptibility based on the confined alignment of magnetic beads in microchannels of selected channel height, followed by localized hydrolysis of sol-gel precursors within polyelectrolyte shells adsorbed on the beads. The layer-by-layer technique was used to coat the polystyrene beads with polyelectrolytes of alternating charge and with charged magnetic nanoparticles, and the polystyrene cores could be removed either by solvent dissolution or by calcination to form hollow-shelled chains. The reorientation dynamics of single and clustered chains following the application of an external magnetic field was evaluated theoretically, with favorable comparisons with the experimental data.

Synthesis of flexible magnetic nanowires of permanently linked core-shell magnetic beads tethered to a glass surface patterned by microcontact printing

We have developed an efficient, one-step method to create magnetic nanowires consisting of permanently linked chains of magnetic beads of varying flexibility tethered to a patterned glass surface using simple amidation chemistry. The flexibility of the nanowire was governed by the molecular weight of the molecule used to covalently link the beads and its length by the height of the microchannel in which it was synthesized. The nanowire diameter was determined both by the bead size and by the number of beads adhering to each dot in the microstamped, patterned array. Longer nanowires can form loops attached at two points on the glass surface. Both single flexible chains and flexible loops can adopt different configurations (straight, hairpin, S-shaped, etc.) when subjected to magnetic fields, the configurations depending on the directions of these fields. Shorter, less flexible nanowires align with the field always and do not exhibit the more exotic configurations seen for long, flexible chains and loops. These magnetic nanowires can have potential use in microfluidic pumping and mixing processes and in microparticle manipulation.

Controlled clustering and enhanced stability of polymer-coated magnetic nanoparticles

The clustering and stability of magnetic nanoparticles coated with random copolymers of acrylic acid, styrenesulfonic acid, and vinylsulfonic acid has been studied. Clusters larger than 50 nm are formed when the coatings are made using too low or too high molecular weight polymers or using insufficient amounts of polymer. Low-molecular-weight polymers result in thin coatings that do not sufficiently screen van der Waals attractive forces, while high-molecular-weight polymers bridge between particles, and insufficient polymer results in bare patches on the magnetite surface. The stability of the resulting clusters is poor, but when an insufficient polymer is used as primary coating, and a secondary polymer is added to coat remaining bare magnetite, the clusters are stable in high salt concentrations (>5 M NaCl), while retaining the necessary cluster size for efficient magnetic recovery. The magnetite cores were characterized by TEM and vibrating sample magnetometry, while the clusters were characterized by dynamic light scattering. The clustering and stability are interpreted in terms of the particle-particle interaction forces, and the optimal polymer size can be predicted well on the basis of these forces and the solution structure and hydrophobicity of the polymer. The size of aggregates formed by limited polymer can be predicted with a diffusion-limited colloidal aggregation model modified with a sticking probability based on fractional coating of the magnetite cores.

Electrochemical Detection of Chloride by Underpotentially Deposited Silver Films on Polycrystalline Gold

This paper describes an electrochemical method for measuring dilute levels of chloride using an underpotentially deposited (UPD) Ag adlayer on polycrystalline Au substrates as a sensing agent. Specifically, chloride ions adsorb onto the Ag UPD adlayer and effect changes in the electrochemical deposition and stripping characteristics of the silver film. Cyclic voltammograms (CVs) of the native Au/Ag(UPD) electrode in 0.1 M H2SO4(aq) exhibit a primary stripping peak for the Ag UPD adlayer at 550 mV vs Ag(+/0), and chloride adsorption onto the Au/Ag(UPD) surface effects a peak shift to approximately 600 mV vs Ag(+/0), depending on the amount of adsorbed Cl-, as affected by the Cl- concentrations and contact times employed in the derivatization. The chloride-treated electrodes also exhibit a stripping peak at 275 mV that is not observed on the native substrate and increases in intensity with Cl- concentration and derivatization time. The integrated charge density for this latter stripping peak relative to that for the primary stripping peak at 550-610 mV provides a useful metric for quantifying adsorbed Cl- levels, and these values allow measurement of Cl- concentrations in dilute aqueous solutions. For Cl- concentrations between 0.5 and 100 microM, the kinetics of Cl- adsorption followed a transient Langmuir adsorption model and allowed measured surface coverages to be used for determining Cl- solution concentrations. Using contact times of 1 min for Cl- adsorption, the electrodes showed a linear response across Cl- concentrations of 0.5-20 microM.

A simple soft lithographic route to fabrication of poly(ethylene glycol) microstructures for protein and cell patterning

We present a simple, direct soft lithographic method to fabricate poly(ethylene glycol) (PEG) microstructures for protein and cell patterning. This lithographic method involves a molding process in which a uniform PEG film is molded with a patterned polydimethylsiloxane stamp by means of capillary force. The patterned surfaces created by this method provide excellent resistance towards non-specific protein and cell adsorption. The patterned substrates consist of two regions: the molded PEG surface that acts as a resistant layer and the exposed substrate surface that promotes protein or cell adsorption. A notable finding here is that the substrate surface can be directly exposed during the molding process due to the ability to control the wetting properties of the polymer on the stamp, which is a key factor to patterning proteins and cells.

Structure of polymer-stabilized magnetic fluids: small-angle neutron scattering and mean-field lattice modeling

Small-angle neutron scattering and mean-field lattice modeling were used to characterize a class of water-based magnetic fluids tailored specifically to extract soluble organic compounds from water. The fluids consist of a suspension of approximately 7 nm magnetite (Fe3O4) nanoparticles coated with a bifunctional polymer layer comprised of an outer hydrophilic poly(ethylene oxide) (PEO) region for colloidal stability and an inner hydrophobic poly(propylene oxide) (PPO) region for solubilization of organic compounds. The inner region of the polymer shell is increasingly depleted of water as the fraction of PPO side chains increases. The incorporation of PPO side chains also leads to a small increase in interparticle attraction. The lattice model predicted a shell structure similar to that of a PEO-PPO-PEO triblock copolymer (Pluronic) micelle, with equivalent levels of hydration but with more PEO present in the PPO-rich regions, as the side chains grafted to the surface are less able to segregate than when in free micellar systems.

A very thin coating for capillary zone electrophoresis of proteins based on a tri(ethylene glycol)-terminated alkyltrichlorosilane

We describe the use of a tri(ethylene glycol)-terminated alkyltrichlorosilane to create a very thin, protein-resistant "self-assembled monolayer" coating on the inner surface of a fused-silica capillary. The same compound has been demonstrated previously on flat silica substrates to resist adsorption of many proteins. As a covalently bound capillary coating, it displays good resistance to the adsorption of cationic proteins, providing clean separations of a mixture of lysozyme, cytochrome c, ribonuclease A, and myoglobin for more than 200 consecutive runs. Electroosmotic flow (EOF) was measured as a function of pH; the coated capillary retains significant cathodal EOF, with roughly 50% of the EOF of an uncoated capillary at neutral pH, making this coating promising for applications requiring some EOF. The EOF was reasonably stable, with a 2.9% relative standard deviation during a 24 h period consisting of 72 consecutive separations of cationic proteins. Efficiencies for cationic protein separations were moderate, in the range of 190,000-290,000 theoretical plates per meter. The coating procedure was simple, requiring only a standard cleaning procedure followed by a rinse with the silane reagent at room temperature. No buffer additives are required to maintain the stability of the coating, making it flexible for a range of applications, potentially including capillary electrophoresis-mass spectrometry (CE-MS).

Structural effects on the barrier properties of self-assembled monolayers formed from long-chain omega-alkoxy-n-alkanethiols on copper

The adsorption of long-chain omega-alkoxy-n-alkanethiols [CH(3)(CH(2))(p-1)O(CH(2))(m)SH; m = 11, 19, 22; p = 18, 22] onto copper produces self-assembled monolayers (SAMs) that can provide protection against corrosion of the underlying metal substrate. The resulting films are 40-60 A in thickness and are isostructural with SAMs formed on copper from unsubstituted n-alkanethiols. As evidenced by electrochemical impedance spectroscopy (EIS), the barrier properties of these ether-containing SAMs depend on the chain length of the adsorbate and the position of the ethereal unit along the hydrocarbon chain. For SAMs where the ether substitution is farther from the copper surface, the initial coating resistances are similar to those projected for unsubstituted n-alkanethiolate SAMs of similar thickness. For SAMs where the ether substitution is nearer to the copper surface (m = 11), the resistances are significantly less than those for unsubstituted n-alkanethiolate SAMs of similar thickness, reflecting the effect of the molecular structure on the barrier properties of the film. Upon exposure to 1 atm of O(2) at 100% RH, the SAMs become less densely packed as observed by infrared (IR) spectroscopy, and their barrier properties deteriorate as observed by EIS. The rate that the SAMs lose their barrier properties upon exposure to oxidizing conditions is correlated to the strength of intermolecular interactions within the bulk state of the adsorbate.

Protein separations using colloidal magnetic nanoparticles

Phospholipid-coated colloidal magnetic nanoparticles with mean magnetite core size of 8 nm are shown to be effective ion exchange media for the recovery and separation of proteins from protein mixtures. These particles have high adsorptive capacities (up to 1200 mg protein/mL adsorbent, an order of magnitude larger than the best commercially available adsorbents) and exhibit none of the diffusional resistances offered by conventional porous ion exchange media. Protein-laden particles are readily recovered from the feed solution using high-gradient magnetic filtration.

Chemical influences on adsorption-mediated self-propelled drop movement

We report studies of reactive wetting employing droplets of a nonpolar liquid (decahydronaphthalene) on chemically patterned surfaces. The drops contain an n alkylamine that adsorbs onto surfaces exposing carboxylic acid groups and produces surfaces exposing methyl groups. The change in surface energy that occurs concurrent with the formation of an oriented monomolecular film of alkylamine during this process is sufficient to produce a self-propelled movement of decahydronaphthalene drops on the surface. We employed patterning to direct the movement of the drops on the surface, thereby allowing measurements of the relationships between the macroscopic fluidic behavior of the droplets and microscopic adsorption events. Specifically, we examined the effects of the unbalanced surface-tension force and the influences of adsorbate concentration on drop movement. In this latter case, both kinetic and thermodynamic arguments can be applied to describe the system. We compared the predictions from these two approaches by analyzing data from the present system and those reported by F. Domingues Dos Santos and T. Ondarcuhu [Phys. Rev. Lett. 75(16), 2972 (1975)] that exhibited opposite trends in behavior. The present analysis provides insight into the influence of chemical reaction kinetics on adsorption-mediated drop movement (i.e., reactive wetting).