A universal protocol for photochemical covalent immobilization of intact carbohydrates for the preparation of carbohydrate microarrays

Trehalose-Grafted Glycopolymer: Synthesis via the Staudinger Reaction and Capture of Mycobacteria

A new trehalose-grafted poly(2-hydroxyethyl methacrylate) (HEMA) glycopolymer was synthesized via the perfluorophenyl azide (PFPA)-mediated Staudinger reaction between poly(HEMA-co-HEMA-PFPA) and a diphenylphosphine-derivatized trehalose. The reaction occurred rapidly at room temperature without the use of any catalyst, giving the trehalose glycopolymers over 68% yield after 1 h. The grafting density of trehalose can be controlled by the copolymer composition in poly(HEMA-co-HEMA-PFPA), resulting in 6.1% (TP1) or 37% (TP2) at 10:1 and 1:1 HEMA/HEMA-PFPA feed ratio, respectively. The trehalose glycopolymer was covalently attached on glass slides or silicon wafers using a thin film of poly(HEMA-co-HEMA-PFPA) as the adhesion layer, achieved through the C-H insertion reaction of the photogenerated singlet perfluorophenyl nitrene. To demonstrate the ability of the trehalose glycopolymer to capture mycobacteria, arrays of the trehalose glycopolymer were fabricated and treated with Mycobacterium smegmatis. Results from the optical, fluorescence, and scanning electron microscopy showed that mycobacteria were indeed captured on the trehalose glycopolymer. The amount of mycobacteria captured increased with the percent trehalose in the trehalose glycopolymer and also with the concentration of the trehalose glycopolymer. In addition, the captured bacteria could be visualized by the naked eye under the illumination of a hand-held UV lamp.

Carbohydrate microarrays fabricated on poly(2-methylacrylic acid)-based substrates for analysis of carbohydrate–protein interactions

Carbohydrate microarrays were fabricated on poly(2-methylacrylic acid) (pMAA)-based substrates. They were used for investigating the specific interactions of polysaccharides and SARS-CoV-2 spike protein.

Fabrication of carbohydrate microarrays on poly(2-hydroxyethyl methacrylate)-cyanuric chloride-modified substrates for the analysis of carbohydrate–lectin interactions

The pHEMA polymer provides an anti-fouling surface and the CC linker allows the covalent immobilization of intact carbohydrates.

Stability of Polydopamine Coatings on Gold Substrates Inspected by Surface Plasmon Resonance Imaging

Polydopamine (PDA)-based surface modification has been used in a variety of fields. However, a vague impression on the stability of PDA still exists due to a lack of systematic studies. To ascertain the issue and make better use of this surface modification method, a technique of surface plasmon resonance imaging (SPRi) was exploited to study the stability of PDA coated on gold surface. The results showed that PDA-coating stability was largely dependent on the pH of aqueous solutions, giving detachment ratios up to 66% and 80% at pH 1.0 and pH 14.0, respectively. However, increasing the ionic strength of aqueous solutions could reduce the detachment of PDA in strong acid and strong alkali conditions. Besides, organic solvents also made a difference on the PDA-coating stability. Among the tested 10 kinds of organic solvents, including n-hexane, toluene, ethyl ether, tetrahydrofuran, ethyl acetate, isopropanol, acetone, acetonitrile, dimethylformamide (DMF), and dimethyl sulfoxide (DMSO), DMSO caused the most serious detachment of PDA, up to 56%, followed by DMF with a detachment ratio of 31%. Ultrasonication caused less than 10% detachment of the coated PDA. It should be mentioned that the PDA coatings deposited on gold surface were not detached completely in all the test conditions, even at pH 14.0 (ca. 20% PDA retained). In alkaline conditions, detachment competes with further polymerization, which gave a slight increase of the SPRi signals at pH 9.0-11.0. Based on the obtained information about PDA-coating stability, thickness-controllable and alkali-resistant PDA coatings were prepared. Moreover, the alkali-resistant PDA coatings remained reactive to biomolecules, supporting further functionalization of PDA coatings.

The Expanding World of Small Molecule Microarrays

Speed and throughput are vital ingredients for discovery driven, "-omics" research. The small molecule microarray (SMM) succeeds at delivering phenomenal screening throughput and versatility. The concept at the heart of the technology is elegant, yet simple: by presenting large collections of molecules in high density on a flat surface, one is able to interrogate all possible interactions with desired targets, in just a single step. SMMs have become established as the choice platform for screening, lead discovery, and molecular characterization. This introduction describes the principles governing microarray construction and use, focusing on practical challenges faced when conducting SMM experiments. It will explain the key design considerations and lay the foundation for the chapters that follow. (An earlier version of this chapter appeared in Small Molecule Microarrays: Methods and Protocols, published in 2010.).

Fabrication of Bio-function-Preserved Saccharide Microarray Chips with Cyanuric Chloride as a Rotatable Linker

Microarray-based saccharide chips possess an inherent property of high throughput but remain hard to use in practice due mainly to their fabrication problems, which have led to many strategies proposed but nearly none can immobilize small saccharides without losing their bio-affinity. Herein introduced is an easy strategy able to directly immobilize all intact saccharides on solid surface with excellent preservation of their molecular recognition ability. The core idea is to anchor a saccharide molecule on a universally rotatable molecular frame to free its spatial adjustment during molecular recognition process. This strategy can simply be realized by use of cyanuric chloride as a rotatable linker which offers three reactive chlorines pointing at 120°. The first chlorine can readily react with hydroxyl groups at only 0-5 °C, enabling one to "plant" a layer of Y-shaped rotatable linker on hydroxyl-terminated surfaces. This facilitates the second chlorine on one of the upper "Y-branch" to react with saccharides at ca. 25 °C, a very convenient room temperature for practical manipulation. The third chlorine can further react with saccharides but at ca. 50 °C which is not too difficult to manipulate but commonly is not utilized. This chemical strategy has been exploited to dot various intact hydroxyl substances on either gold or glass surfaces, and the recognition ability of the anchored saccharides with their right lectins was validated to be well preserved according to surface plasmon resonance and/or laser-induced fluorescence imaging data. Furthermore the method is extendable to amines and other substances able to be hydroxylated and/or aminated.

Three-Dimensional Graphene-TiO2 Nanocomposite Photocatalyst Synthesized by Covalent Attachment

We report the synthesis of a three-dimensional graphene (3DG)-TiO2 nanocomposite by covalently attaching P25 TiO2 nanoparticles onto pristine 3DG through a perfluorophenyl azide-mediated coupling reaction. The TiO2 nanoparticles were robustly attached on the 3DG surface, with minimal particle agglomeration. In photocatalytic CO2 reduction, the 3DG-TiO2 nanocomposite demonstrated excellent activity, about 11 times higher than that of the P25 TiO2 nanoparticles. The enhanced activity can be partially attributed to the highly dispersed state of the P25 TiO2 nanoparticles on the 3DG substrate. This 3DG-based system offers a new platform for fabricating photocatalytic materials with enhanced activities.

Fabrication of carbohydrate microarrays on a poly(2-hydroxyethyl methacrylate)-based photoactive substrate

A carbohydrate microarray was fabricated on a PHEMA-based photoactive polymer. The arrays showed strong signals, and were used to probe carbohydrate-mediated interactions with lectin and bacteria.

Aggregation-based detection of M. smegmatis using D-arabinose-functionalized fluorescent silica nanoparticles

Fluorescein-doped silica nanoparticles (FSNPs) functionalized with D-arabinose (Ara) showed strong interactions with Mycobacterium smegmatis (M. smegmatis) and caused the bacteria to aggregate. This aggregate formation was used as a means to detect M. smegmatis at the concentration of 10(4) CFU per mL.

Lectin-gated, mesoporous, photofunctionalized glyconanoparticles for glutathione-responsive drug delivery

A stimuli-responsive drug delivery system based on fluorescent, lectin-gated, mesoporous glyconanoparticles has been developed and evaluated in normal- and cancer lung epithelial cells. The gating process proved efficient, exhibiting good sealing properties in the absence of the glutathione redox trigger, avoiding premature release in normal cells. In the presence of higher levels of glutathione in cancer cells, the lectin gate was rapidly opened and the anticancer drug released.

Analysis of the surface density and reactivity of perfluorophenylazide and the impact on ligand immobilization

Perfluorophenylazide (PFPA) chemistry is a novel method for tailoring the surface properties of solid surfaces and nanoparticles. It is general and versatile, and has proven to be an efficient way to immobilize graphene, proteins, carbohydrates, and synthetic polymers. The main thrust of this work is to provide a detailed investigation on the chemical composition and surface density of the PFPA tailored surface. Specifically, gold surfaces were treated with PFPA-derivatized (11-mercaptoundecyl)tetra(ethylene glycol) (PFPA-MUTEG) mixed with 2-[2-(2-mercaptoethoxy)ethoxy]ethanol (MDEG) at varying solution mole ratios. Complementary analytical techniques were employed to characterize the resulting films including Fourier transform infrared spectroscopy to detect fingerprints of the PFPA group, x-ray photoelectron spectroscopy and ellipsometry to study the homogeneity and uniformity of the films, and near edge x-ray absorption fine structures to study the electronic and chemical structure of the PFPA groups. Results from these studies show that the films prepared from 90:10 and 80:20 PFPA-MUTEG/MDEG mixed solutions exhibited the highest surface density of PFPA and the most homogeneous coverage on the surface. A functional assay using surface plasmon resonance with carbohydrates covalently immobilized onto the PFPA-modified surfaces showed the highest binding affinity for lectin on the PFPA-MUTEG/MDEG film prepared from a 90:10 solution.

Quantitative assessment of the multivalent protein-carbohydrate interactions on silicon

A key challenge in the development of glycan arrays is that the sensing interface be fabricated reliably so as to ensure the sensitive and accurate analysis of the protein-carbohydrate interaction of interest, reproducibly. These goals are complicated in the case of glycan arrays as surface sugar density can influence dramatically the strength and mode of interaction of the sugar ligand at any interface with lectin partners. In this Article, we describe the preparation of carboxydecyl-terminated crystalline silicon (111) surfaces onto which are grafted either mannosyl moieties or a mixture of mannose and spacer alcohol molecules to provide "diluted" surfaces. The fabrication of the silicon surfaces was achieved efficiently through a strategy implicating a "click" coupling step. The interactions of these newly fabricated glycan interfaces with the lectin, Lens culinaris, have been characterized using quantitative infrared (IR) spectroscopy in the attenuated total geometry (ATR). The density of mannose probes and lectin targets was precisely determined for the first time by the aid of special IR calibration experiments, thus allowing for the interpretation of the distribution of mannose and its multivalent binding with lectins. These experimental findings were accounted for by numerical simulations of lectin adsorption.

Photochemically prepared, two-component polymer-concentration gradients

A versatile, photochemical surface-modification approach using nitrene-insertion reactions has been employed to develop an ultrathin, two-component, polymer-gradient coating. Perfluorophenyl azide (PFPA) acted as the photosensitive moiety, forming a nitrene radical upon 254 nm UV exposure. Cationic poly(allyl amine) was grafted with PFPA and surface-anchored onto silicon wafers by means of electrostatic self-assembly. After spin-coating of polystyrene (PS), the substrate was illuminated from behind a moving shutter, thereby controlling the azide-to-nitrene conversion degree across the substrate, and leading to a gradually varying PS density after rinsing. Backfilling with poly(vinyl pyrrolidone) (PVP) and re-exposing to UV light formed a two-component polymer-density gradient. The composition varied linearly following exposure to a linear UV exposure profile, as determined with spectroscopic ellipsometry (ELM) and X-ray photoelectron spectroscopy (XPS). High-spatial-resolution, time-of-flight secondary ion mass spectrometry (ToF-SIMS) revealed a high degree of mixing between the two incompatible polymers on the micrometer scale. The dynamic water-contact angle (dCA) was found to depend strongly on the sample history, suggesting adaptive properties of the coating, which was further confirmed by angle-resolved XPS (ARXPS). To confirm the applicability of the system for biological investigations, gradients were exposed to zoospores of the macrofouling alga Ulva linza , and a critical PS composition of 70% was identified, above which settlement started to increase. It has been shown that a two-component polymer-density gradient can provide a high-throughput platform for determining critical surface properties of polymer blend materials.

Antifouling surfaces for proteins labeled with dye-doped silica nanoparticles

We report that proteins labeled with fluorescein-doped silica nanoparticles (FSNPs) showed drastically different fouling behavior than those labeled with the fluorescein dye. Arrays of polymer films were covalently immobilized on silicon wafers and were treated with protein conjugated on FSNPs. Fluorescence imaging showed that the protein-FSNP conjugate adsorbed strongly on hydrophilic polymers such as poly(ethylene oxide) (PEO) and weakly on hydrophobic polymers such as polystyrene (PS), and the extent of adsorption decreased with increasing hydrophobicity of the polymer film. Thus, carbohydrate microarrays probed with FSNP-labeled lectin showed significantly enhanced signals when PS was used as the antifouling coating than when PEO was used, or when using bovine serum albumin as the blocking agent.

Matrix-assisted laser ablation production of gold cluster ions from Au-coated photonic crystals

A new strategy was explored to generate pure gold cluster ions, Au(n)(+/-), from gold films deposited on solid substrates via a matrix-assisted laser ablation technique. The gold films deposited on SiO(2)-particle-assembled photonic crystals were demonstrated to be the most ideal compared with the films deposited on various glass slides. Dropped with a matrix of 2-(4-hydroxyphenylazo) benzoic acid and bombarded by nitrogen pulse laser (355 nm), they could release a series of Au(n)(+) with n more than 110 or Au(n)(-) with n more than 60 according to the data obtained by inline time-of-flight mass spectrometry. The gold-deposited photonic crystal substrates could be stored at room temperature for at least 6 months. The method is hence steady and convenient in use.

Fabrication of glyconanoparticle microarrays

We report a new type of microarray, based on glyconanoparticles (GNPs), to study glycan-lectin interactions. GNPs, synthesized by conjugating carbohydrate ligands on silica nanoparticles, were printed on a photoactive surface followed by covalent immobilization by light activation. The GNP microarrays could be probed by lectins labeled with fluorescein as well as fluorescein-doped silica nanoparticles (FSNPs). Results showed that FSNP as the label enhanced the signals for the higher affinity ligands than the lower ones.

Use of fungal derived polysaccharide-conjugated particles to probe Dectin-1 responses in innate immunity

The number of life-threatening fungal infections has risen in immunocompromised patients, and identification of the rules that govern an appropriate immune response is essential to develop better diagnostics and targeted therapeutics. The outer cell wall component on pathogenic fungi consists of β-1,3-glucan, and Dectin-1, a pattern recognition receptor present on the cell surface of innate immune cells, binds specifically to this carbohydrate. A barrier in understanding the exact immunological response to pathogen-derived carbohydrate epitopes is the presence of multiple types of carbohydrate moieties on fungal cell walls. To dissect the immunological mechanisms used to recognize pathogens, a system of "fungal like particles" was developed that consisted of polystyrene beads, which mimicked the three dimensional shape of the fungus, coated covalently with purified β-1,3-glucan derived from Saccharomyces cerevisiae. The morphology of the β-1,3-glucan layer was examined by immunofluorescence, flow cytometery, and immuno-transmission electron microscopy. The covalent linkages of the β-1,3-glucan to the polystyrene surface were stable after subjecting the beads to detergents. By pre-treating β-1,3-glucan beads with laminarinase, a specific β-1,3-gluconase, the reactivity of the anti-β-1,3-glucan antibody was abrogated in comparison to treatment with proteinase K indicating that the coating of these beads was predominantly β-1,3-glucan. TNF-α was also measured by stimulating bone-marrow derived macrophages with the β-1,3-glucan beads, and showed a dose dependent response compared to soluble β-glucan, insoluble β-1,3-glucan, uncoated beads, and soluble β-1,3-glucan mixed with uncoated beads. Finally, β-1,3-glucan beads were incubated with GFP-Dectin-1 expressing macrophages and imaged using confocal microscopy. β-1,3-beads were taken up within minutes and retained Dectin-1 recruitment to the phagosome as compared to uncoated beads. These data describe a unique fungal-like particle system that will permit immunologists to probe the critical steps in early recognition of pathogen-derived fungal carbohydrate antigens by innate immune cells.