Hydrophilic immobilized trypsin reactor with magnetic graphene oxide as support for high efficient proteome digestion

Enhancing Enzyme Stability and Functionality: Covalent Immobilization of Trypsin on Magnetic Gum Arabic Modified Fe3O4 Nanoparticles

This study aimed to fabricate gum Arabic (GA)-coated Fe3O4 nanoparticles bearing numerous active aldehyde groups on their surface, followed by an assessment of their capability as a magnetic support for the covalent immobilization of the trypsin enzyme for the first time. FT-IR, XRD, TGA, and SEM results demonstrated the successful synthesis of GA-coated Fe3O4 nanoparticles, along with the covalent immobilization of the enzyme onto the support. Immobilization enhanced the relative enzymatic activity across a range of aqueous solution pH levels (ranging from 4 to 11) and temperatures (ranging from 20 to 80 °C) without altering the optimum pH and temperature for trypsin activity. Kinetic studies using Michaelis-Menten plots revealed changes in kinetic parameters, including a lower Vmax and higher Km for immobilized trypsin compared to the free enzyme. The immobilization onto magnetic gum Arabic nanoparticles resulted in an improved stability of trypsin in the presence of various solvents, maintaining a stability order comparable to that of the free enzyme due to the stabilizing effect of the support. The reusability results showed that the immobilized enzyme can retain over 93% of its activity for up to 15 cycles.

Covalent Organic Frameworks (COFs) as Multi-Target Multifunctional Frameworks

Covalent organic frameworks (COFs), synthesized from organic monomers, are porous crystalline polymers. Monomers get attached through strong covalent bonds to form 2D and 3D structures. The adjustable pore size, high stability (chemical and thermal), and metal-free nature of COFs make their applications wider. This review article briefly elaborates the synthesis, types, and applications (catalysis, environmental Remediation, sensors) of COFs. Furthermore, the applications of COFs as biomaterials are comprehensively discussed. There are several reported COFs having good results in anti-cancer and anti-bacterial treatments. At the end, some newly reported COFs having anti-viral and wound healing properties are also discussed.

Colorimetric Biosensor Based on Magnetic Enzyme and Gold Nanorods for Visual Detection of Fish Freshness

Histamine, an important safety index for aquatic products, can also be used as a freshness indicator for red-fleshed fish. In this work, magnetic graphene oxide (Fe3O4@GO, MGO) was applied to immobilize diamine oxidase (DAO) through a method of adsorption and covalent bonding. Under the optimized conditions, magnetic DAO prepared by adsorption immobilization had a higher enzyme activity than that of free enzyme, which was selected for the sensor construction. A colorimetric biosensor based on magnetic DAO induced etching of gold nanorods (AuNRs) was developed for the detection of histamine in fish. The developed biosensor showed an excellent response toward histamine with a low detection limit of 1.23 μM and had negligible interference from other diamines. With increasing the histamine concentration, the AuNRs after the reaction exhibited colors ranging from dark green to blue-green, blue, purple, red, and colorless. The etching induced multicolor change of AuNRs indicated the presence of different contents of histamine in mackerel during storage, and was consistent with the overall change in the content of the total volatile basic nitrogen (TVB-N). Thus, it was indicated that the proposed colorimetric biosensor with a naked-eye-detectable readout has a great potential to evaluate the freshness of red-fleshed fish high in histamine.

Industrial applications of immobilized nano-biocatalysts

Immobilized enzyme-based catalytic constructs could greatly improve various industrial processes due to their extraordinary catalytic activity and reaction specificity. In recent decades, nano-enzymes, defined as enzyme immobilized on nanomaterials, gained popularity for the enzymes' improved stability, reusability, and ease of separation from the biocatalytic process. Thus, enzymes can be strategically incorporated into nanostructured materials to engineer nano-enzymes, such as nanoporous particles, nanofibers, nanoflowers, nanogels, nanomembranes, metal-organic frameworks, multi-walled or single-walled carbon nanotubes, and nanoparticles with tuned shape and size. Surface-area-to-volume ratio, pore-volume, chemical compositions, electrical charge or conductivity of nanomaterials, protein charge, hydrophobicity, and amino acid composition on protein surface play fundamental roles in the nano-enzyme preparation and catalytic properties. With proper understanding, the optimization of the above-mentioned factors will lead to favorable micro-environments for biocatalysts of industrial relevance. Thus, the application of nano-enzymes promise to further strengthen the advances in catalysis, biotransformation, biosensing, and biomarker discovery. Herein, this review article spotlights recent progress in nano-enzyme development and their possible implementation in different areas, including biomedicine, biosensors, bioremediation of industrial pollutants, biofuel production, textile, leather, detergent, food industries and antifouling.

Facile covalent preparation of carbon nanotubes / amine-functionalized Fe3O4 nanocomposites for selective extraction of estradiol in pharmaceutical industry wastewater

As a typical steroid hormone drug, estradiol (E2) is also one of the most frequently detected endocrine disrupting chemicals (EDCs) in the aquatic environment. Herein, in response to the potential risk of E2 in steroid hormone pharmaceutical industry wastewater to human and wildlife, a novel carbon nanotubes / amine-functionalized Fe₃O₄ (CNTs/MNPs@NH₂) nanocomposites with magnetic responsive have been developed for the enrichment and extraction of E2 in pharmaceutical industry wastewater, where amino-functionalized Fe₃O₄ magnetic nanoparticles (MNPs@NH₂) were used as a magnetic source. The resultant CNTs/MNPs@NH₂ possessed both the features of CNTs and desired magnetic property, enabling to rapidly recognize and separate E2 from pharmaceutical industry wastewater. Meanwhile, the CNTs/MNPs@NH₂ had good binding behavior toward E2 with fast binding kinetics and high adsorption capacity, as well as exhibited satisfactory selectivity to steroidal estrogen compounds. Furthermore, the change of pH value of aqueous phase in adsorption solvent hardly affected the adsorption of E2 by CNTs/MNPs@NH₂, and the adsorption capacity of E2 ranged from 19.9 to 17.2 mg g^-1 in the pH range of 3.0 to 11.0, which is a latent advantage of the follow-up development method to detect E2 in pharmaceutical industry wastewater. As a result, the CNTs/MNPs@NH₂ serving as a solid phase extraction medium were successfully applied to efficiently extract E2 from pharmaceutical industry wastewater. Therefore, the CNTs/MNPs@NH₂ nanocomposites could be used as a potential adsorbent for removing steroidal estrogens from water. More importantly, the developed method would provide a promising solution for the monitoring and analysis of EDCs in pharmaceutical industry wastewater.

Time-dependent study of graphene oxide-trypsin adsorption interface and visualization of nano-protein corona

Understanding of interactions of nanomaterials with biomolecules (especially proteins) is of great importance to the area of nanobiotechnology. Graphene and its derivative such as graphene oxide (GO), are two-dimensional (2-D) nanomaterials with remarkable physical and chemical properties and have been broadly explored in biotechnology and biomedical application. Here, we have reported the nature of adsorption of trypsin on the GO surface, considering its biomedical implications. A simple incubation of trypsin on GO surface exhibits varying resistance to autolysis. The structural morphology of trypsin on the GO surface was studied by using atomic force microscopy (AFM), circular dichroism (CD), fluorescence, and total internal reflection fluorescence (TIRF) microscopies. Results suggest that the trypsin follows the Freundlich Isotherm. By the Langmuir model, the maximum adsorption capacity was found to be 100 mg/g. From protein assay results we have concluded that the native trypsin exhibits the highest catalytic efficiency (33.97*10⁴ L mol^-1 min^-1) in comparison to other Trp-GO constructs. We have further visualized morphological change on GO-trypsin interface throughout the adsorption process by taking samples at definite time intervals, which suggests that the interaction of trypsin with GO is an example of the soft corona. Our findings may be implicated in enzyme engineering as well as enzyme-based bio-sensing applications.

Fast protein analysis enabled by high-temperature hydrolysis

While the bottom-up protein analysis serves as a mainstream method for biological studies, its efficiency is limited by the time-consuming process for enzymatic digestion or hydrolysis as well as the post-digestion treatment prior to mass spectrometry analysis. In this work, we developed an enzyme-free microreaction system for fast and selective hydrolysis of proteins, and a direct analysis of the protein digests was achieved by nanoESI (electrospray ionization) mass spectrometry. Using the microreactor, proteins in aqueous solution could be selectively hydrolyzed at the aspartyl sites within 2 min at high temperatures (∼150 °C). Being free of salts, the protein digest solution could be directly analyzed using a mass spectrometer with nanoESI without further purification or post-digestion treatment. This method has been validated for the analysis of a variety of proteins with molecular weights ranging from 8.5 to 67 kDa. With introduction of a reducing agent into the protein solutions, fast cleavage of disulfide bonds was also achieved along with high-temperature hydrolysis, allowing for fast analysis of large proteins such as bovine serum albumin. The high-temperature microreaction system was also used with a miniature mass spectrometer for the determination of highly specific peptides from Mycobacterium tuberculosis antigens, showing its potential for point-of-care analysis of protein biomarkers.

A Novel and High-Effective Biosynthesis Pathway of Hesperetin-7-O-Glucoside Based on the Construction of Immobilized Rhamnosidase Reaction Platform

Hesperetin-7-O-glucoside (HMG) is a precursor for synthesizing a sweetener named neohesperidin dihydrochalcone, and the coordination toward flavonoids of metal ions tends to increase the water solubility of flavonoids. In order to achieve effective synthesis of HMG, an immobilized enzyme catalysis platform was constructed using an immobilized rhamnosidase on Fe₃O₄@graphene oxide (Fe₃O₄@GO), a novel reaction pathway based on the platform was designed for preparing a hesperidin complex as a soluble substrate, and ammonium hydroxide as a ligand dissociation agent to obtain HMG. The Fe₃O₄@GO was characterized by Fourier transform infrared (FT-IR), X-ray diffraction (XRD), scanning electron microscope (SEM), and thermal methods (TG/DSC) analysis to evaluate the immobilization matrix properties. The enzyme activity in free and immobilized form at different pH and temperature was optimized. The reusability of immobilized enzyme was also determined. In addition, the kinetic parameters (K_m and V_max) were computed after experiment. Results indicated that rhamnosidase immobilized on Fe₃O₄@GO using a green cross-linker of genipin hydrolyzed successfully and selectively the soluble hesperidin-Cu (II) complex into HMG-Cu (II), a permanent magnet helped the separation of immobilized enzyme and hydrolytes, and ammonium hydroxide was an effective ligand dissociation agent of translating HMG-Cu (II) into HMG with high purity determined by ultraviolet-visible (UV-Vis) spectra analysis and time-of-flight mass spectrometry (TOF-MS). As a result, a novel and high-effective biosynthesis pathway of HMG based on a selectively catalytic reaction platform were constructed successfully. The pathway based on the platform has great potential to produce valuable citrus monoglycoside flavonoid HMG, and the designed reaction route are feasible using the hesperidin-Cu (II) complex with good solubility as a reaction substrate and using ammonium water as a dissociation agent.

Thermoresponsive Arrays Patterned via Photoclick Chemistry: Smart MALDI Plate for Protein Digest Enrichment, Desalting, and Direct MS Analysis

Sample desalting and concentration are crucial steps before matrix-assisted laser desorption/ionization-mass spectrometry (MALDI-MS) analysis. Current sample pretreatment approaches require tedious fabrication and operation procedures, which are unamenable to high-throughput analysis and also result in sample loss. Here, we report the development of a smart MALDI substrate for on-plate desalting, enrichment, and direct MS analysis of protein digests based on thermoresponsive, hydrophilic/hydrophobic transition of surface-grafted poly(N-isopropylacrylamide) (PNIPAM) microarrays. Superhydrophilic 1-thioglycerol microwells are first constructed on alkyne-silane-functionalized rough indium tin oxide substrates based on two sequential thiol-yne photoclick reactions, whereas the surrounding regions are modified with hydrophobic 1H,1H,2H,2H-perfluorodecanethiol. Surface-initiated atom-transfer radical polymerization is then triggered in microwells to form PNIPAM arrays, which facilitate sample loading and enrichment of protein digests by concentrating large-volume samples into small dots and achieving on-plate desalting through PNIPAM configuration change at elevated temperature. The smart MALDI plate shows high performance for mass spectrometric analysis of cytochrome c and neurotensin in the presence of 1 M urea and 100 mM NaHCO₃, as well as improved detection sensitivity and high sequence coverage for α-casein and cytochrome c digests in femtomole range. The work presents a versatile sample pretreatment platform with great potential for proteomic research.

One-Step Facile Synthesis of Aptamer-Modified Graphene Oxide for Highly Specific Enrichment of Human A-Thrombin in Plasma

The enrichment of low-abundance proteins in complex biological samples plays an important role in clinical diagnostics and biomedical research. This work reports a novel one-step method for the synthesis of aptamer-modified graphene oxide (GO/Apt) nanocomposites, without introducing the use of gold, for the rapid and specific separation and enrichment of human α-thrombin from buffer solutions with highly concentrated interferences. The obtained GO/Apt nanocomposites had remarkable aptamer immobilization, up to 44.8 nmol/mg. Furthermore, GO/Apt nanocomposites exhibited significant specific enrichment efficiency for human α-thrombin (>90%), even under the presence of 3000-fold interference proteins, which was better than the performance of other nanomaterials. Finally, the GO/Apt nanocomposites were applied in the specific capturing of human α-thrombin in highly concentrated human plasma solutions with negligible nonspecific binding of other proteins, which demonstrated their prospects in rare protein analysis and biosensing applications.

Eco-Friendly Composite of Fe3O4-Reduced Graphene Oxide Particles for Efficient Enzyme Immobilization

A novel type of spherical and porous composites were synthesized to dually benefit from reduced graphene oxide (rGO) and magnetic materials as supports for enzyme immobilization. Three magnetic composite particles of Fe₃O₄ and rGO containing 71% (rGO-Fe₃O₄-M1), 36% (rGO-Fe₃O₄-M2), and 18% (rGO-Fe₃O₄-M3) Fe were prepared using a one-pot spray pyrolysis method and were used for the immobilization of the model enzymes, laccase and horseradish peroxidase (HRP). The rGO-Fe₃O₄ composite particles prepared by spray pyrolysis process had a regular shape, finite size, and uniform composition. The immobilization of laccase and HRP on rGO-Fe₃O₄-M1 resulted in 112 and 89.8% immobilization efficiency higher than that of synthesized pure Fe₃O₄ and rGO particles, respectively. The stability of laccase was improved by approximately 15-fold at 25 °C. Furthermore, rGO-Fe₃O₄-M1-immobilized laccase exhibited 92.6% of residual activity after 10 cycles of reuse and was 192% more efficient in oxidizing different phenolic compounds than the free enzyme. Therefore, these unique composite particles containing rGO and Fe₃O₄ may be promising supports for the efficient immobilization of industrially important enzymes with lower acute toxicity toward Vibrio fischeri than commercial pure Fe₃O₄ particles.

Planar graphene oxide-based magnetic ionic liquid nanomaterial for extraction of chlorophenols from environmental water samples coupled with liquid chromatography-tandem mass spectrometry

A planar graphene oxide-based magnetic ionic liquid nanomaterial (PGO-MILN) was synthesized. The prepared PGO-MILN was characterized by transmission electronmicroscopy (TEM) and Fourier-transform infrared spectrometry (FTIR). The results of adsorption experiments showed that the PGO-MILN had great adsorption capacity for 2-chlorophenol (2-CP), 2,4-dichlorophenol (2,4-DCP), 2,4,6-trichlorophenol (2,4,6-TCP), 2,3,4,6-tetrachlorophenol (2,3,4,6-TeCP) and pentachlorophenol (PCP). Based on the adsorption experimental data, a sensitive magnetic method for determination of the five CPs in environmental water samples was developed by an effective magnetic solid-phase extraction (MSPE) procedure coupled with high-performance liquid chromatography-tandem mass spectrometry (LC-MS/MS). The effects of main MSPE parameters including the solution pH, extraction time, desorption time, and volume of desorption solution on the extraction efficiencies had been investigated in detail. The recoveries ranged from 85.3 to 99.3% with correlation coefficients (r) higher than 0.9994 and the linear ranges were between 10 and 500ngL(-1). The limits of detection (LODs) and limits of quantification (LOQs) of the five CPs ranged from 0.2 to 2.6ngL(-1) and 0.6 to 8.7ngL(-1), respectively. The intra- and inter- day relative standard deviations (RSDs) were in the range from 0.6% to 7.4% and from 0.7% to 8.4%, respectively. It was confirmed that the PGO-MILN was a kind of highly effective MSPE materials used for enrichment of trace CPs in the environmental water.

Graphene based magnetic nanocomposites as versatile carriers for high yield immobilization and stabilization of β-galactosidase

The present study demonstrates an efficient method for high yield immobilization of Aspergillus oryzae β-galactosidase onto graphene-iron oxide nanocomposites (Gr@Fe₃O₄ NCs) by a simple adsorption mechanism.

Hollow silica bubble based immobilized trypsin for highly efficient proteome digestion and buoyant separation

Tryptic digestion before identification and quantification by mass spectrometry is an indispensable process for most proteomics studies.

Aptamer-conjugated gold functionalized graphene oxide nanocomposites for human α-thrombin specific recognition

The specific recognition toward target proteins from complex biological samples has great potential in clinical diagnostics and therapeutics, receiving more and more attention. Herein, we achieved the specific detection of human α-thrombin from human serum by aptamer-conjugated gold functionalized graphene oxide nanocomposites (denoted as Apt/Au/PEI/GO nanocomposites). Gold functionalized graphene oxide nanocomposites were synthesized by in situ growth of Au nanoparticles on graphene oxide surface using polyethylenimine as reducing and stabilizing reagents, and then it was used as support for aptamer immobilization through forming an Au-S bonding. The obtained Apt/Au/PEI/GO nanocomposites inherited not only the large surface area which made the immobilizing amount of aptamer up to 36.1 nmol/mg, but also the excellent hydrophilicity which showed remarkable selectivity for human α-thrombin specific recognition, even with the interference of 3000 fold human serum proteins. Furthermore, with its superior properties, Apt/Au/PEI/GO nanocomposites showed advantages of high capture efficiency (>86%) and excellent recognition repeatability. Finally, the Apt/Au/PEI/GO nanocomposites were successfully applied for human α-thrombin specific recognition in human serum, verifying its great potential in clinical applications.

Polyethyleneimine-modified graphene oxide nanocomposites for effective protein functionalization

A facile method to prepare a biocompatible graphene oxide (GO)-based substrate for protein immobilization was developed to overcome the drawbacks of GO, such as the strong electrostatic and hydrophobic interactions which could potentially alter the conformation and biological activity of proteins. The GO was coated with hydrophilic branched polyethyleneimine (BPEI), while Concanavalin A (Con A) as a model lectin protein was employed to fabricate the functionalized composites to evaluate the feasibility of this strategy. The composites exhibit an extremely high binding capacity for glycoproteins (i.e. IgG 538.3 mg g(-1)), which are superior to other immobilized materials. Moreover, they can work well in 500-fold non-glycoprotein interference and even in complex biological samples. All these data suggest that the GO@BPEI composites will have great potential as scaffolds for proteins fully exerting their biofunctions.

High-efficiency nano/micro-reactors for protein analysis

This article reviews the recent advances regarding the development of nanomaterial-based nanoreactors and microfluidic droplet reactors and their applications in protein analysis.

A new sample preparation method for the absolute quantitation of a target proteome using 18O labeling combined with multiple reaction monitoring mass spectrometry

A new sample preparation method for target proteome absolute quantitation using ¹⁸O labeling-MRM MS.

An introduction to the chemistry of graphene

This perspective outlines the chemistry of graphene, including functionalization, doping, photochemistry, catalytic chemistry and supramolecular chemistry.

Accelerating trypsin digestion: the immobilized enzyme reactor

Sample preparation has lagged far behind the evolution of instrumentation used in mass-linked protein analysis. Trypsin digestion, for example, still takes a day, as it did 50 years ago, while mass spectral analyses are achieved in seconds. Higher order structure of proteins is frequently modified by varying digestion conditions: shifting the initial points of trypsin cleavage, changing digestion pathways, accelerating peptide bond demasking and altering the distribution of miscleaved products at the completion of proteolysis. Reduction and alkylation are even circumvented in many cases. This review focuses on immobilized enzyme reactor technology as a means to achieve accelerated trypsin digestion by exploiting these phenomena.

Graphene-based nanobiocatalytic systems: recent advances and future prospects

Graphene-based nanomaterials are particularly useful nanostructured materials that show great promise in biotechnology and biomedicine. Owing to their unique structural features, exceptional chemical, electrical, and mechanical properties, and their ability to affect the microenvironment of biomolecules, graphene-based nanomaterials are suitable for use in various applications, such as immobilization of enzymes. We present the current advances in research on graphene-based nanomaterials used as novel scaffolds to build robust nanobiocatalytic systems. Their catalytic behavior is affected by the nature of enzyme-nanomaterial interactions and, thus, the availability of methods to couple enzymes with nanomaterials is an important issue. We discuss the implications of such interactions along with future prospects and possible challenges in this rapidly developing area.