Graphene oxide as a quencher for fluorescent assay of amino acids, peptides, and proteins

Graphene Oxide-Induced Prototropism and Enhancement of Fluorescence Yield of Organic Molecules in Solutions: Recent Advances

Till date, humankind has mainly acknowledged the quenching phenomenon of graphene oxide (GO). From a fundamental science standpoint, the unique and dynamic prospects of graphene oxide have been showcased in a brief but concise manner. Worldwide research studies have proven that graphene oxide has tremendous potentiality in showcasing breakthroughs in the fields of both basic science and innovative applications. In this Perspective, the fact that, apart from the very common fluorescence quenching phenomenon, graphene oxide can also enhance fluorescence intensity, promote prototropism, demonstrate aggregation-induced emission, and itself exhibit photoluminescence properties in nonaqueous media has been highlighted. It draws attention to the fact regarding unveiling the unknown properties of graphene oxide that might be useful to scientific communities in upcoming years.

One-step simultaneous liquid phase exfoliation-induced chirality in graphene and their chirality-mediated microRNA delivery

Graphene (G) has established itself as an exciting prospect for a broad range of applications owing to its remarkable properties. Recent innovations in chiral nanosystems have led to sensors, drug delivery, catalysis, etc. owing to the stereospecific interactions between various nanosystems and enantiomers. As the molecular structure of G itself is achiral introducing chirality in G by simple attachment of a functional group (a chiral ligand) on the G nanosheet may result in more diverse applications. Herein, we demonstrate direct liquid phase exfoliation and chiral induction in G nanosheets abbreviated as l-graphene and d-graphene in the presence of chiral l-tyrosine and d-tyrosine and by applying high-temperature sonication. The obtained exfoliated nanosheets demonstrated stable chirality confirmed by circular dichroism. Fourier transform infrared (FTIR) spectra, Raman spectroscopy, transmission electron microscopy (TEM), X-ray photoelectron spectroscopy (XPS), and differential scanning calorimetry (DSC) showed functional, structural, morphological, surface, and thermal characteristics of l-graphene and d-graphene. The hemo-compatibility of these chiral graphenes was evaluated for the very first time utilizing human red blood cells. Lastly, for the very first time, an attempt was made to explore enantiomeric binding between chiral l-graphene and d-graphene with microRNA (miR-205) and their possibility towards chirality-mediated gene delivery in prostate cancerous cells.

Nanobio Interface Between Proteins and 2D Nanomaterials

Two-dimensional (2D) nanomaterials have significantly contributed to recent advances in material sciences and nanotechnology, owing to their layered structure. Despite their potential as multifunctional theranostic agents, the biomedical translation of these materials is limited due to a lack of knowledge and control over their interaction with complex biological systems. In a biological microenvironment, the high surface energy of nanomaterials leads to diverse interactions with biological moieties such as proteins, which play a crucial role in unique physiological processes. These interactions can alter the size, surface charge, shape, and interfacial composition of the nanomaterial, ultimately affecting its biological activity and identity. This review critically discusses the possible interactions between proteins and 2D nanomaterials, along with a wide spectrum of analytical techniques that can be used to study and characterize such interplay. A better understanding of these interactions would help circumvent potential risks and provide guidance toward the safer design of 2D nanomaterials as a platform technology for various biomedical applications.

Biosensing Systems Based on Graphene Oxide Fluorescence Quenching Effect

Graphene oxide (GO) is a versatile material obtained by the strong oxidation of graphite. Among its peculiar properties, there is the outstanding ability to significantly alter the fluorescence of many common fluorophores and dyes. This property has been exploited in the design of novel switch-ON and switch-OFF fluorescence biosensing platforms for the detection of a plethora of biomolecules, especially pathological biomarkers and environmental contaminants. Currently, novel advanced strategies are being developed for therapeutic, diagnostic and theranostic approaches to widespread pathologies caused by viral or bacterial agents, as well as to cancer. This work illustrates an overview of the most recent applications of GO-based sensing systems relying on its fluorescence quenching effect.

Salmonella typhimurium detection and ablation using OmpD specific aptamer with non-magnetic and magnetic graphene oxide

Foodborne diseases have increased in the last few years due to the increased consumption of packaged and contaminated food. Major foodborne bacteria cause diseases such as diarrhea, vomiting, and sometimes death. So, there is a need for early detection of foodborne bacteria as pre-existing detection techniques are time-taking and tedious. Aptamer has gained interest due to its high stability, specificity, and sensitivity. Here, aptamer has been developed against Salmonella Typhimurium through the Cell-Selex method, and to further find the reason for specificity and sensitivity, OmpD protein was isolated, and binding studies were done. Single molecular FRET experiment using aptamer and graphene oxide studies has also been done to understand the mechanism of FRET and subsequently used for target bacterial detection. Using this assay, Salmonella Typhimurium can be detected up to 10 CFU/mL. Further, Magnetic Graphene oxide was used to develop an assay to separate and ablate bacteria using 808 nm NIR where temperature increase was more than 60 °C within 30 s and has been shown by plating as well as a confocal live dead assay. Thus, using various techniques, bacteria can be detected and ablated using specific aptamer and Graphene oxide.

High utilization efficiencies of alkylbenzokynones hybridized inside the pores of activated carbon for electrochemical capacitor electrodes

Benzoquinone derivatives (BQDs) are hybridized inside activated carbon (AC) pores via gas-phase adsorption to prepare electrochemical capacitor materials. In this study, 2 mmol of BQDs are hybridized with 1 g of AC. The hybridization of alkylbenzoquinones (ABQs) with AC enhances the volumetric capacitances of the hybrids from 117 to 201 F cm^-3 at 0.05 A g^-1 and the capacitances are retained up to 73% at 10 A g^-1. Meanwhile, the volumetric capacitances are increased to 163 F cm^-3 at 0.05 A g^-1 by the hybridization of halobenzoquinones (HBQs) and the capacitance retentions at 0.05 A g^-1 are ∼62%, which are higher than that of AC (46%). The results of electrochemical measurements suggest that HBQs exist as agglomerates while ABQs are finely dispersed inside the pores. The ABQs have good contact with the conductive carbon pore surface compared to the HBQs. Consequently, most of the ABQ molecules undergo reversible redox reactions (i.e., high utilization efficiencies), and a large contact area facilitates charge transfer at the large contact interface, thereby endowing the hybrids of ABQs with fast charging and discharging characteristics. HBQ molecules can be finely dispersed by liquid-phase adsorption, but the finely dispersed HBQ molecules are mobile inside the pores at room temperature and gradually form agglomerates. The difference in the existing form of BQDs is explained by the dominant interaction affecting the BQD molecules. ABQs have a strong interaction with the carbon pore surface while the intermolecular interaction is dominant for HBQs.

A Bioluminescent Protein-Graphene Oxide Donor-Quencher Pair in DNA Hybridization Assays

Despite fluorescent quenching with graphene oxide (GO) having shown great success in various applications - bioluminescent quenching has not yet been demonstrated using GO as a quencher. To explore the ability of GO to quench bioluminescence, we used Gaussia luciferase (Gluc) as a donor and GO as a quencher and demonstrated its application in sensing of two target analytes, HIV-1 DNA and IFN-γ. We demonstrated that the incubation of Gluc conjugated HIV-1 and IFN-γ oligonucleotide probes with GO provided for monitoring of probe-target interactions based on bioluminescence measurement in a solution phase sensing system. The limits of detection obtained for IFN-γ and HIV-1 DNA detection were 17 nM and 7.59 nM, respectively. Both sensing systems showed selectivity toward the target analyte. The detection of IFN-γ in saliva matrix was demonstrated. The use of GO as a quencher provides for high sensitivity while maintaining the selectivity of designed probes to their respective targets. The use of GO as a quencher provides for an easy assay design and low cost, environmentally friendly reporter.

Composite PVK/SLGO As Matrix for MALDI-TOF MS Detection of Small Molecules in Dual-Ion Mode

Currently, most matrices developed for matrix-assisted laser desorption/ionization mass spectrometry (MALDI-TOF MS) for small-molecule detection are only suitable for the positive or negative ion mode and not the dual-ion mode, except for carbon-based nanomaterials. The lone-pair electrons on the N atom in poly n-vinylcarbazole (PVK) can serve as a Lewis base with strong electron-donation effects, which is favorable for negative ion mode detection. The surface of single-layer graphene oxide (SLGO) contains many oxygen atoms in carboxyl and hydroxyl groups that act as Lewis acids and thereby provides favorable protonation sites for positive ion mode detection. In this study, composite PVK/SLGO was prepared by combining the advantages of amorphous PVK and SLGO. PVK/SLGO was tested as a novel matrix for positive- and negative-ion-mode MALDI-TOF MS for the analysis of amino acids, nucleic acid bases, environmental endocrine disruptors, antibiotics, and various small molecules. PVK/SLGO was compared with PVK, SLGO, and commercially available matrices of 9-aminoacridine (9-AA) and α-cyano-4-hydroxycinnamic acid (CHCA). The PVK/SLGO matrix was demonstrated to be suitable for the positive and negative ion modes, exhibiting high signal intensity and detection sensitivity without background interference. The limits of detection of the aforementioned molecules ranged from 0.1 to 0.0001 and 0.01 to 0.0001 mg/mL in the positive and negative ion modes, respectively. The quantitative determination of enrofloxacin in milk was realized using an internal standard method with a linear range of 0.0001-0.1 mg/mL (R ² = 0.9991). Furthermore, the PVK/SLGO matrix exhibited high salt tolerance (up to 1000 mmol/L) and stability over 28 consecutive days. Studies regarding its ionization mechanism revealed that the good performance originates from the combined materials acting synergistically. This study provides a foundation for developing bimodal composite matrices and further expands the scope of PVK/SLGO applications.

DFMO Carbon Dots for Treatment of Neuroblastoma and Bioimaging

Neuroblastoma (NB) is a pediatric malignancy affecting the peripheral nervous system. Despite recent advancements in treatment, many children affected with NB continue to submit to this illness, and new therapeutic strategies are desperately needed. In recent years, studies of carbon dots (CDs) as nanocarriers have mostly focused on the delivery of anticancer agents because of their biocompatibility, good aqueous dissolution, and photostability. Their fluorescence properties, surface functionalities, and surface charges differ on the basis of the type of precursors used and the synthetic approach implemented. At present, most CDs are used as nanocarriers by directly linking them either covalently or electrostatically to drug molecules. Though most modern CDs are synthesized from large carbon macromolecules and conjugated to anticancerous drugs, constructing CDs from the anticancerous drugs and precursors themselves to increase antitumoral activity requires further investigation. Herein, CDs were synthesized using difluoromethylornithine (DFMO), an irreversible ornithine decarboxylase inhibitor commonly used in high-risk neuroblastoma treatment regiments. In this study, NB cell lines, SMS-KCNR and SK-N-AS, were treated with DFMO, the newly synthesized DFMO CDs, and conventional DFMO conjugated to black carbon dots. Bioimaging was done to determine the cellular localization of a fluorescent drug over time. The mobility of DNA mixed with DFMO CDs was evaluated by gel electrophoresis. DFMO CDs were effectively synthesized from DFMO precursor and characterized using spectroscopic methods. The DFMO CDs effectively reduced cell viability with increasing dose. The effects were dramatic in the N-MYC-amplified line SMS-KCNR at 500 μM, which is comparable to high doses of conventional DFMO at a 60-fold lower concentration. In vitro bioimaging as well as DNA electrophoresis showed that synthesized DFMO CDs were able to enter the nucleus of neuroblastoma cells and neuronal cells and interact with DNA. Our new DFMO CDs exhibit a robust advantage over conventional DFMO because they induce comparable reductions in viability at a dramatically lower concentration.

Blocking SARS-CoV-2 Delta Variant (B.1.617.2) Spike Protein Receptor-Binding Domain Binding with the ACE2 Receptor of the Host Cell and Inhibiting Virus Infections Using Human Host Defense Peptide-Conjugated Graphene Quantum Dots

The emergence of double mutation delta (B.1.617.2) variants has dropped vaccine effectiveness against SARS-CoV-2 infection. Although COVID-19 is responsible for more than 5.4 M deaths till now, more than 40% of infected individuals are asymptomatic carriers as the immune system of the human body can control the SARS-CoV-2 infection. Herein, we report for the first time that human host defense neutrophil α-defensin HNP1 and human cathelicidin LL-37 peptide-conjugated graphene quantum dots (GQDs) have the capability to prevent the delta variant virus entry into the host cells via blocking SARS-CoV-2 delta variant (B.1.617.2) spike protein receptor-binding domain (RBD) binding with host cells' angiotensin converting enzyme 2 (ACE2). Experimental data shows that due to the binding between the delta variant spike protein RBD and bioconjugate GQDs, in the presence of the delta variant spike protein, the fluorescence signal from GQDs quenched abruptly. Experimental quenching data shows a nonlinear Stern-Volmer quenching profile, which indicates multiple binding sites. Using the modified Hill equation, we have determined n = 2.6 and the effective binding affinity 9 nM, which is comparable with the ACE2-spike protein binding affinity (8 nM). Using the alpha, beta, and gamma variant spike-RBD, experimental data shows that the binding affinity for the delta B.1.617.2 variant is higher than those for the other variants. Further investigation using the HEK293T-human ACE2 cell line indicates that peptide-conjugated GQDs have the capability for completely inhibiting the entry of delta variant SARS-CoV-2 pseudovirions into host cells via blocking the ACE2-spike protein binding. Experimental data shows that the inhibition efficiency for LL-37 peptide- and HNP1 peptide-attached GQDs are much higher than that of only one type of peptide-attached GQDs.

Synthesis Mechanisms, Structural Models, and Photothermal Therapy Applications of Top-Down Carbon Dots from Carbon Powder, Graphite, Graphene, and Carbon Nanotubes

In this study, top-down syntheses of carbon dots (CDs) from four different carbon precursors, namely, carbon nano powders, graphite, graphene, and carbon nanotubes, were carried out. Systematic study demonstrated that the optical properties and surface functionalities of the CDs were quite similar and mainly influenced by the synthesis method, while the sizes, morphologies, chemical compositions, and core structures of the CDs were heavily influenced by the carbon precursors. On the basis of these studies, the formation processes and structural models of these four top-down CDs were proposed. The cell cytotoxicity and photothermal conversion efficiency of these CDs were also carefully evaluated, demonstrating their potential applications in photothermal therapy.

Graphene oxide-controlled neutral versus cationic form of a red emitting dye: enhancement of fluorescence by graphene oxide

Fluorescence enhancement of fluorophores in neat solvent media in the presence of graphene oxide (GO) is less known. It is necessary to re-examine the role of GO from the fundamental scientific viewpoint. Herein, we have reported GO controlled conversion from the neutral to cationic form of a red emitting molecule. Besides this, the switching of the role of GO as an enhancer to a quencher of fluorescence depending on the concentration of GO in the presence of proton accepting solvent media was established. Intermolecular proton transfer from the GO surface to fluorophores is responsible for this phenomenon.

Drug Loading of Anthracycline Antibiotics on Carbon Dots Using Circular Dichroism Spectrometry

Drug delivery systems using nanoparticles are currently in the panorama of nanomedicine studies. In oncology, chemotherapeutic regimens using anthracycline antibiotics rely on the dosage of treatments to minimize the severity of side effects on the patient. Therefore, even in targeted delivery systems it is of great importance to quantify the level of drug administrated for dosage and quality control of the treatment. Herein, as a feasible pathway to shed light on improving nano drug quantification procedures, we proposed a simple analytical protocol to quantify the anthracyclines loaded on our nonchiral carbon nitride dots (CNDs) with circular dichroism spectrometry (CD). The calibration curves from the linear relation between ellipticity and concentration of the anthracycline drugs followed by measurements on the CNDs conjugates were used in achieving the quantification technique which showed different drug loading for each anthracycline used such as daunorubicin, doxorubicin, and epirubicin.

Graphene Oxide-Based Simple and Rapid Detection of Antibiotic Resistance Gene via Quantum Dot-Labeled Zinc Finger Proteins

With the increasing rise of antibiotic-resistant pathogens, a simple and rapid detection of antibiotic resistance gene (ARG) is crucial to mitigate the spreading of antibiotic resistance. DNA-binding zinc finger proteins (ZFPs) can be engineered to recognize specific double-stranded (ds) DNA sequences in ARG. Here, we designed a simple and rapid method to detect ARG in bacteria utilizing engineered ZFPs and 2D nanosheet graphene oxide (GO) as a sensing platform. Our approach relies on the on and off effect of fluorescence signal in the presence and absence of target ARG, respectively. By taking advantage of the unique quenching capability of GO due to its electronic property, quantum dot (QD)-labeled ZFPs are adsorbed onto the GO sheets, and their fluorescence signal is quenched by proximal GO sheets through fluorescence resonance energy transfer (FRET). In the presence of target DNA, ZFP binding to the target DNA induces dissociation from GO, thereby restoring the fluorescence signal. Our system detects target DNA through restoration of QD emission as the restored signal increases directly with target DNA concentrations. Engineered ZFPs were able to detect specific dsDNA of the tetracycline resistance gene tetM with high specificity after only 10 min incubation on our GO-based sensing system. Our sensing system employed one-step FRET-based ZFP and GO combined technology to enable rapid and quantitative detection of ARG, providing a limit of detection as low as 1 nM. This study demonstrated the application of GO in conjunction with engineered DNA-binding domains for the direct detection of dsDNA with great potential as a rapid and reliable screening and detecton method against the growing threat of antibiotic resistant bacteria.

Fluorescence Determination of Peptidase Activity Based on the Quenching of a Fluorophore-Labelled Peptide by Graphene Oxide

In this study, a fluorescence detection strategy is reported for the peptidase activity assay, which is based on fluorescence resonance energy transfer (FRET) from a fluorophore-labelled peptide to graphene oxide (GO). By the hydrolysis of the peptide, the fluorophore-labelled peptide releases the fluorophore 5-carboxyfluorescein, which can avoid quenching from GO. Thus, the increased intensity of the obtained fluorescence signal in the assay is directly dependent on the peptidase activity. As a model case of the developed strategy, the activity determination of pancreatic elastase (PE) is performed. Under the optimal experimental conditions at an excitation wavelength of 494 nm, the activity of PE can be determined in the range from 0.003 to 0.10 U/mL, with a detection limit of 0.001 U/mL at the emission wavelength of 518 nm. This is ultra-sensitive for the determination of PE. The specificity of the method is demonstrated by the analysis of PE under complex conditions using fetal bovine serum as the substrate. Hence, the developed method might provide an intrinsically convenient, sensitive platform for the PE activity assay and related biochemical studies due to its homogeneous, and fluorescence-based detection strategy.

Graphenic substrates as modifiers of the emission and vibrational responses of interacting molecules: The case of BODIPY dyes

Graphenic substrates (GS), such as reduced graphene oxide (rGO) and graphene oxide (GO), are 2D materials known for their unique physicochemical properties such as their ability to enhance vibrational spectroscopic signals and quench the fluorescence of adsorbed molecules. These properties provide an opportunity to develop nanostructured GS-based systems for detecting and identifying different analytes with high sensitivity and reliability through molecular spectroscopic techniques. This work evaluated the capacities of different GS to interact with a highly fluorescent compound, thereby changing its optical emission response (fluorescence quenching) and amplifying its vibrational signal, which is the base of graphene-enhanced Raman scattering (GERS). To test these properties, we used a derivative of highly fluorescent BODIPY (BP) compounds, which cover a wide range of applications from solar energy conversion to photodynamic cancer therapy. GS prepared by using the Langmuir-Blodgett (LB) technique allowed us to quench the fluorescence emission of BP and improve its Raman spectroscopy detection limit due to the GERS effect. These results were interpreted in light of the π-π interactions taking place between the Csp² domains of GS and the aromatic core of the BP fluorophore.

Insights into graphene oxide interaction with human serum albumin in isolated state and in blood plasma

The interactions of graphene oxide (GO), a 2-dimensional nanomaterial with hydrophilic edges, hydrophobic basal plane and large flat surfaces, with biological macromolecules, are of key importance for the development of novel nanomaterials for biomedical applications. To gain more insight into the interaction of GO flakes with human serum albumin (HSA), we examined GO binding to HSA in its isolated state and in blood plasma. Calorimetric data reveal that GO strongly stabilizes free isolated HSA against a thermal challenge at low ionic strength, indicating strong binding interactions, confirmed by the drop in ζ-potential of the HSA/GO assemblies compared to bare GO flakes. However, calorimetry also revealed that the HSA-GO molecular interaction is hampered in blood plasma, the ionic strength being particularly important for the interactions. Molecular modelling calculations are in full concert with these experimental findings, indicating a considerably higher binding affinity for HSA to GO in its partially unfolded state, characteristic to low-ionic-strength environment, than for the native protein conformation, observed under physiological conditions. Therefore, for the first time we demonstrate an impeded interaction between HSA and GO nanoflakes in blood plasma, and suggest that the protein is protected from the plausible toxic effects of GO under native conditions.

Aggregation-induced negative differential resistance in graphene oxide quantum dots

Negative differential resistance (NDR) devices have attracted considerable interest due to their potential applications in switches, memory devices, and analog-to-digital converters. Modulation of the NDR is an essential issue for the development of NDR-based devices. In this study, we successfully synthesized graphene oxide quantum dots (GOQDs) using graphene oxide, cysteine, and H2O2. The current-voltage characteristics of the GOQDs exhibit a clear NDR in the ambient environment at room temperature. A peak-to-valley ratio as high as 4.7 has been achieved under an applied voltage sweep from -6 to 6 V. The behavior of the NDR and its corresponding peak-to-valley ratio can be controlled by adjusting the range of applied voltages, air pressure, and relative humidity. Also, the NDR is sensitive to the the concentration of H2O2 added in the synthesis. The charge carrier injection through the trapping states, induced by the GOQD aggregation, could be responsible for the NDR behavior in GOQDs.

Physicochemical Properties and Hematocompatibility of Layered Double Hydroxide-Based Anticancer Drug Methotrexate Delivery System

A layered double hydroxide (LDH)-based anticancer delivery system was investigated in terms of crystalline phase, particle size, hydrodynamic radius, zeta potential, etc. through in vitro and in vivo study. Size controlled LDH with anticancer drug methotrexate (MTX) incorporation was successfully prepared through step-by-step hydrothermal reaction and ion-exchange reaction. The MTX-LDH was determined to have a neutral surface charge and strong agglomeration in the neutral aqueous condition due to the surface adsorbed MTX; however, the existence of proteins in the media dramatically reduced agglomeration, resulting in the hydrodynamic radius of MTX-LDH being similar to the primary particle size. The protein fluorescence quenching assay exhibited that MTX readily reduced the fluorescence of proteins, suggesting that the interaction between MTX and proteins was strong. On the other hand, MTX-LDH showed much less binding constant to proteins compared with MTX, implying that the protein interaction of MTX was effectively blocked by the LDH carrier. The in vivo hemolysis assay after intravenous injection of MTX-LDH showed neither significant reduction in red blood cell number nor membrane damage. Furthermore, the morphology of red blood cells in a mouse model did not change upon MTX-LDH injection. Scanning electron microscopy showed that the MTX-LDH particles were attached on the blood cells without serious denaturation of cellular morphology, taking advantage of the cell hitchhiking property.

Janus Micromotors Coated with 2D Nanomaterials as Dynamic Interfaces for (Bio)-Sensing

In this work, we study the interaction of graphdiyne oxide (GDYO)-, graphene oxide (GO)-, or black phosphorous (BP)-wrapped Janus micromotors using a model system relying on a fluorescence-labeled affinity peptide, which is released upon specific interaction with a target Cholera Toxin B. Such ON-OFF-ON system allows mimicking similar processes occurring at (bio)-interfaces and to study the related sorption and desorption kinetics. The distinct surface properties of each nanomaterial play a critical role in the loading/release capacity of the peptide, greatly influencing the release profiles. Sorption obeys a second-order kinetic model using the two-dimensional (2D) nanomaterials in connection with micromotors, indicating a strong influence of chemisorption process for BP micromotors. Yet, release kinetics are faster for GDYO and GO nanomaterials, indicating a contribution of π and hydrophobic interactions in the probe sorption (Cholera Toxin B affinity peptide) and target probe release (in the presence of Cholera Toxin B). Micromotor movement also plays a critical role in such processes, allowing for efficient operation in low raw sample volumes, where the high protein content can diminish probe loading/release, affecting the overall performance. The loading/release capacity and feasibility of the (bio)-sensing protocol are illustrated in Vibrio cholerae and Vibrio parahaemolyticus bacteria cultures as realistic domains. The new concept described here holds considerable promise to understand the interaction of micromotor with biological counterparts in a myriad of biomedical and other practical applications, including the design of novel micromotor-based sensors.

Graphene oxide sheets and quantum dots inhibit α-synuclein amyloid formation by different mechanisms

Aggregation and amyloid formation of the 140-residue presynaptic and intrinsically disordered protein α-synuclein (α-syn) is a pathological hallmark of Parkinson's disease (PD). Understanding how α-syn forms amyloid fibrils, and investigations of agents that can prevent their formation is therefore important. We demonstrate herein that two types of graphene oxide nanoparticles (sheets and quantum dots) inhibit α-syn amyloid formation by different mechanisms mediated via differential interactions with both monomers and fibrils. We have used thioflavin-T fluorescence assays and kinetic analysis, circular dichroism, dynamic light scattering, fluorescence spectroscopy and atomic force microscopy to asses the kinetic nature and efficiency of this inhibitory effect. We show that the two types of graphene oxide nanoparticles alter the morphology of α-syn fibrils, disrupting their interfilament assembly and the resulting aggregates therefore consist of single protofilaments. Our results further show that graphene oxide sheets reduce the aggregation rate of α-syn primarily by sequestering of monomers, thereby preventing primary nucleation and elongation. Graphene quantum dots, on the other hand, interact less avidly with both monomers and fibrils. Their aggregation inhibitory effect is primarily related to adsorption of aggregated species and reduction of secondary processes, and they can thus not fully prevent aggregation. This fine-tuned and differential effect of graphene nanoparticles on amyloid formation shows that rational design of these nanomaterials has great potential in engineering materials that interact with specific molecular events in the amyloid fibril formation process. The findings also provide new insight into the molecular interplay between amyloidogenic proteins and graphene-based nanomaterials in general, and opens up their potential use as agents to manipulate fibril formation.

Graphene Oxide Nanosheets Tailored With Aromatic Dipeptide Nanoassemblies for a Tuneable Interaction With Cell Membranes

Engineered graphene-based derivatives are attractive and promising candidates for nanomedicine applications because of their versatility as 2D nanomaterials. However, the safe application of these materials needs to solve the still unanswered issue of graphene nanotoxicity. In this work, we investigated the self-assembly of dityrosine peptides driven by graphene oxide (GO) and/or copper ions in the comparison with the more hydrophobic diphenylalanine dipeptide. To scrutinize the peptide aggregation process, in the absence or presence of GO and/or Cu²⁺, we used atomic force microscopy, circular dichroism, UV-visible, fluorescence and electron paramagnetic resonance spectroscopies. The perturbative effect by the hybrid nanomaterials made of peptide-decorated GO nanosheets on model cell membranes of supported lipid bilayers was investigated. In particular, quartz crystal microbalance with dissipation monitoring and fluorescence recovery after photobleaching techniques were used to track the changes in the viscoelastic properties and fluidity of the cell membrane, respectively. Also, cellular experiments with two model tumour cell lines at a short time of incubation, evidenced the high potential of this approach to set up versatile nanoplatforms for nanomedicine and theranostic applications.

Usage of Graphene Oxide in Fluorescence Quenching-Linked Immunosorbent Assay for the Detection of Cry2Ab Protein Present in Transgenic Plants

Graphene oxide-based sensor technologies in various detection platforms have been adopted in multiple dimensions. Most of the applications in combination with other materials such as gold, silver, enzymes, and so forth are read as electrical, electrochemical, impedance, and fluorescence signals. We report the development of a novel and simple fluorescence quenching-based immunoassay platform that provides quantitative binding sites for the Cry2Ab protein content present in the transgenic cotton (Gossypium hirsutum) plant. In this assay, the graphene oxide-conjugated anti-Cry2Ab antibody serves as the binding site for the analyte Cry2Ab protein, which forms a complex with a second anti-Cry2Ab fluorescein isothiocyanate (FITC)-conjugated antibody. This complex acts as the reaction center of this platform where the graphene oxide quenches the fluorescence signal of the FITC molecule. This microtiter plate-based method currently works at a sensitivity of 0.78 ng /ml, which can further be improved.

Fluorescence quenching effects of carbon nano-structures (Graphene Oxide and Nano Diamond) coupled with Methylene Blue

Here, the effect of Graphene Oxide (GO) and Nano Diamond (ND) carriers on the spectral properties of the fluorescence emissions of MB suspensions in the form of (MB + GO) and (MB + ND) biomaterials are investigated. The strong affinity of MB fluorophores with GO/ND nanostructures lead to the chemical bonding formation that affects the quenching coefficient and spectral shift. According to Stern-Volmer linearity despite, the excited (MB + GO) is strongly quenched due to its privileged bonding affinity, however the (MB + ND) does not. Furthermore, the corresponding quenching coefficients are measured. In fact, GO additives in the MB suspension gives rise to a sensible blue shift due to its surface functionality while no spectral shift takes place in the case of (MB + ND). We have shown that the complex formation such as (MB + GO) is strongly correlated to the GO quenching coefficient due to the hydrogen bonding and π - π staking, whereas there is a loose dependence with the blue shift phenomena. Furthermore, we have compared the quenching coefficients of Rd6G and DOX with MB fluorophore to attest the quenching coefficient is strongly correlated to the molecular structure and its active sites. The findings could be helpful in the course of simultaneous PDT and fluorescence imaging.

Hemocompatibility of Carbon Nanostructures

Carbon nanostructures (CNs), such as carbon nanotubes, fullerenes, carbon dots, nanodiamonds as well as graphene and its derivatives present a tremendous potential for various biomedical applications, ranging from sensing to drug delivery and gene therapy, biomedical imaging and tissue engineering. Since most of these applications encompass blood contact or intravenous injection, hemocompatibility is a critical aspect that must be carefully considered to take advantage of CN exceptional characteristics while allowing their safe use. This review discusses the hemocompatibility of different classes of CNs with the purpose of providing biomaterial scientists with a comprehensive vision of the interactions between CNs and blood components. The various complex mechanisms involved in blood compatibility, including coagulation, hemolysis, as well as the activation of complement, platelets, and leukocytes will be considered. Special attention will be paid to the role of CN size, structure, and surface properties in the formation of the protein corona and in the processes that drive blood response. The aim of this review is to emphasize the importance of hemocompatibility for CNs intended for biomedical applications and to provide some valuable insights for the development of new generation particles with improved performance and safety in the physiological environment.

A graphene oxide-based fluorescence assay for the sensitive detection of DNA exonuclease enzymatic activity

The 3'-5' exonuclease enzyme plays a dominant role in multiple pivotal physiological activities, such as DNA replication and repair processes. In this study, we designed a sensitive graphene oxide (GO)-based probe for the detection of exonuclease enzymatic activity. In the absence of Exo III, the strong π-π interaction between the fluorophore-tagged DNA and GO causes the efficient fluorescence quenching via a fluorescence resonance energy transfer (FRET). In contrast, in the presence of Exo III, the fluorophore-tagged 3'-hydroxyl termini of the DNA probe was digested by Exo III to set the fluorophore free from adsorption when GO was introduced, causing an inefficient fluorescence quenching. As a result, the fluorescence intensity of the sensor was found to be proportional to the concentration of Exo III; towards the detection of Exo III, this simple GO-based probe demonstrated a highly sensitive and selective linear response in the low detection range from 0.01 U mL-1 to 0.5 U mL-1 and with the limit of detection (LOD) of 0.001 U mL-1. Compared with other fluorescent probes, this assay exhibited superior sensitivity and selectivity in both buffer and fetal bovine serum samples, in addition to being cost effective and having a simple setup.

Probing the molecular toxic mechanism of lead (II) ions with glutathione peroxidase 6 from Arabidopsis thaliana

Along with non-biodegradability and accumulation in agricultural soil, lead (II) ions exert considerable harmful effects on plants even at trace amount, especially for the oxidative damages elicited by the lead ions-induced excessive reactive oxygen species (ROS). The glutathione peroxidases were reported to be correspondent with the oxidative stress induced by heavy metals. However, limited data are available about the potential hazardous mechanisms of the lead ions-induced oxidative damage to plants at molecular level. In this study, the harmful impacts of lead ions on Arabidopsis thaliana glutathione peroxidase 6 (AtGPX6) were assessed based on multi-spectroscopic measurements and molecular docking study. The characteristic fluorescence of AtGPX6 was quenched by lead ions with static mechanism at different temperatures. AtGPX6 exhibits a single binding site with lead ions, and then the complex formation was mainly driven by hydrogen bonding interaction and van der Waals forces on account of the negative ΔH and ΔS. The secondary structural changes were observed from the synchronous fluorescence, UV-visible absorption and Circular dichroism spectra, which led to loosen and unfold of the protein framework accompanied by the incremental hydrophobicity around the vicinity of the tryptophan residues. Therefore, this work illustrates the detailed binding mode between lead (II) ions and glutathione peroxidase 6 from Arabidopsis thaliana and the toxic effects on antioxidative defense system induced by lead ions at molecular level.

Facile Evaluation of Nanoparticle-Protein Interaction Based on Charge Neutralization with Pulsed Streaming Potential Measurement

Exploration of simple and universal methods to quantitatively measure nanoparticle (NP)-protein interaction is of great importance. In this work, pulsed streaming potential (SP) measurement has been used to evaluate the interaction between NPs and proteins within microchannels. Graphene oxide (GO) and SiO₂ NPs were selected to represent two kinds of NPs. Lysozyme and common blood proteins, including albumin V, γ-globulins, and fibrinogen, were used as model proteins. The linear relationship between the initial adsorption rate (S = dE_r/dt) and the concentration of proteins was observed. Combined with the Hill equation, the microscopic dissociation constant (K_D) and the Hill coefficient (n) between NPs and proteins were calculated based on the relationship between S and the concentration of each protein. The concentration of free proteins which have not interacted with the NPs in the NPs-protein mixture could also be measured. The influence of pH, conductivity, and ionic strengths of the incubation buffer on the interaction between GO and lysozyme was evaluated based on the constant K_D. The interaction intensity between NPs and proteins was defined as charge neutralization efficiency Q_C, which could be calculated from the value of S. It takes only 150 s to get the whole set of data under the optimized experiment parameters. The measurement solely depends on the surface charge, no intrinsic fluorescence is required for either the NPs or the proteins, and no labeling or immobilization process is involved as well.

Synthesis of Oligomeric and Monomeric Functionalized Graphene Oxides and a Comparison of Their Abilities to Perform as Protein Ligands and Enzyme Inhibitors

Graphene oxide (GO) is a versatile, monomolecular layered nanomaterial that possesses various oxygen-containing functionality on its large surface. These characteristics allow GO to interact with a variety of materials and to be applied towards a number of areas. The strength and selectivity of these interactions can be improved significantly through further functionalization. In this paper, we describe the functionalization of GO and its application as a protein ligand and an enzyme inhibitor. The work reported in this paper details how chymotrypsin inhibition can be improved using GO functionalized with a monomeric and oligomer layer of tyrosine. The results indicated that the mono- and oligo-functionalized systems performed extremely well, with Ki values nearly four times better than GO alone. Our original premise was that the oligomeric system would bind better because of the length of the oligomeric arms and potential for a high degree of flexibility. However, the results clearly showed that the shorter monomeric system was the better ligand/inhibitor. This was due to weaker intramolecular interactions between the aromatic side chains of tyrosine and the aromatic surface of GO. Although these are possible for both systems, they are cooperative and therefore stronger for the oligomeric functionalized GO. As such, the protein must compete and overcome these cooperative intramolecular interactions before it can bind to the functionalized GO, whereas the tyrosines on the surface of the monomeric system interact with the surface of GO through a significantly weaker monovalent interaction, but interact cooperatively with the protein surface.

Applications of Graphene and Its Derivatives in Chemical Analysis

In this review, the applications of graphene and its derivatives in the chemical analysis have been described. The properties of graphene materials which are essential for their use in chemical and biochemical analysis are characterized. The materials are used in sensors and biosensors, in electrochemistry, in chromatography and in the sample preparation techniques. Chemical and electrochemical sensors containing graphene materials are useful devices for detecting some chemical and biochemical compounds. Chromatographic columns for HPLC with graphene containing stationary phases may be used for separation of polar and nonpolar components of some specific mixtures. Graphene materials could be successfully employed during sample preparation for analysis with SPE, magnetic SPE, and SPME techniques. HighlightsThe review of the applications of graphene (G) and its derivatives, graphene oxide (GO) and reduced graphene oxide (rGO), in chemical and biochemical analysis is proposed.The electron donor-acceptor and proton donor-acceptor interactions for the graphene based materials - analytes systems and their impact on the analysis results are discussed, particularly:    i) in electrochemistry,ii) in chromatography,iii) in modern sample preparation techniquesiv) in sensors of different types.The essence of the thermal stability and the nomenclature of the graphene based materials in their different applications in chemical systems of different classes was discussed (and suggested).The benefits of using SPME fibers with immobilized graphene materials have been presented in detail.

Preparation of graphene oxide-graphene quantum dots hybrid and its application in cancer theranostics

Currently, an enormous amount of cancer research based on two-dimensional nano-graphene oxide (GO), as well as zero-dimensional graphene quantum dots (GQDs), is being carried out in the fields of therapeutics and diagnostics. However, the exploration of their hybrid "functional" nanomaterials in the theranostic system is still rare. In the current study, a stable complex of GO and GQDs was formed by an electrostatic layer-by-layer assembly via a polyethylene imine bridge (GO-PEI-GQDs). Furthermore, we compared separate mono-equivalents of the GO-PEI-GQDs complex - GO and GQDs, in terms of cell imaging (diagnostics), photothermal, and oxidative stress response in breast cancer cells (MDA-MB-231). GO-PEI-GQDs showed an excellent photothermal response (44-49 °C) upon 808 nm laser (0.5 W cm^-2) exposure for 5 min at a concentration up to 50 μg/mL. We report new synergistic properties of GO-PEI-GQDs such as stable fluorescence imaging and enhanced photothermal and cytotoxic activities on cancer cells. Composite materials made up of GO and GQDs combining diverse properties help to study 2D-0D heterosystems and improve specific therapeutic systems in theranostics.

Photophysical deactivation behaviour of Rhodamine B using different graphite materials

In the present work, an attempt has been made to elucidate the structural features of synthesized graphite materials, i.e., expanded graphite (EG) and an expanded graphite/silver nanoparticles (EG/AgNPs) nanocomposite. In order to obtain knowledge about the functional groups present, the interlayer spacing between the carbon layers, topographical features, and the characterization of the materials were carried out using Fourier-transformer infrared spectroscopy, X-ray diffraction, Raman spectroscopy, field emission scanning electron microscopy-energy dispersive X-ray spectroscopy and atomic force microscope. Furthermore, the quenching efficiency of the synthesized graphite materials was also compared using Rhodamine B (Rhd B) as a fluorescent probe. The non-linear behaviour of the Stern–Volmer plots suggested that the complex quenching mechanism (a combination of static and dynamic quenching) was responsible for the decrease in photoluminescence intensity. At a lower concentration of the quencher, the static quenching mechanism was dominant whereas at a higher concentration dynamic processes seemed to be more likely. The binding strength of the complexation between the fluorophore and the quencher at lower concentrations was studied in detail for both of the synthesized materials. The analysis showed that the EG/AgNPs exhibited better quenching efficiency and possessed a strong binding strength in comparison to EG. The thermodynamic parameters of this association suggested that the interaction process was spontaneous and exothermic in nature. Thus, this work offers helpful insights into the fluorescence quenching mechanisms of the Rhd B/EG and its composite system.

Graphical representation of varying quenching mechanism of RhD B dye using different graphite materials i.e. EG and EG/AgNPs.

Computational studies on the molecular insights of aptamer induced poly(N-isopropylacrylamide)-graft-graphene oxide for on/off- switchable whole-cell cancer diagnostics

This work deals with first-principles and in silico studies of graphene oxide-based whole-cell selective aptamers for cancer diagnostics utilising a tunable-surface strategy. Herein, graphene oxide (GO) was constructed as a surface-based model with poly(N-isopropylacrylamide) (PNIPAM) covalently grafted as an "on/off"-switch in triggering interactions with the cancer-cell protein around its lower critical solution temperature. The atomic building blocks of the aptamer and the PNIPAM adsorbed onto the GO was investigated at the density functional theory (DFT) level. The presence of the monomer of PNIPAM stabilised the system's π-π interaction between GO and its nucleobases as confirmed by higher bandgap energy, satisfying the eigenvalues of the single-point energy observed rather than the nucleobase and the GO complex independently. The unaltered geometrical structures of the surface emphasise the physisorption type interaction between the nucleobase and the GO/NIPAM surface. The docking result for the aptamer and the protein, highlighted the behavior of the PNIPAM-graft-GO  is exhibiting globular and extended conformations, further supported by molecular dynamics (MD) simulations. These studies enabled a better understanding of the thermal responsive behavior of the polymer-enhanced GO complex for whole-cell protein interactions through computational methods.

Characterization of the interaction between carbon black and three important antioxidant proteins using multi spectroscopy and modeling simulations

A major user of carbon black is the pigment and dyes industry, where carbon black is incorporated into paints, inks, printers, and plastics. However, little is known about the mechanism underlying the toxicity of carbon black to antioxidant proteins. Carbon black can cause oxidative stress to organisms after they invade into the body. Antioxidant proteins play a key role in keeping the organism from nanoparticle-induced oxidative damage and tend to bind with nanoparticles immediately after their invading into the biological environment, so it is meaningful to elucidate the toxicity of nanoparticles on the antioxidant proteins. In this study, the toxicity of carbon black (SB100) on three different antioxidant proteins (TF (transferrin), SOD (superoxide dismutase), and LYZ (lysozyme)) were investigated. The multi-spectra studies indicated that SB100 interacted with these three proteins and changed their structure in different ways. SB100 changed the microenvironment of fluorophores in SOD and LYZ by quenching the fluorescence spectra of the two enzymes, while changed that of TF by increasing the fluorescence intensity of TF. SB100 changed the secondary structure of these three proteins by decreasing the α-helix content of TF and increasing that of SOD and LYZ. Moreover, SB100 changed the hydrophobicity of the three proteins in different ways as well. And SOD exhibits a more severe activity inhibition than LYZ after exposed to SB100. In summary, SB100 caused different structural and functional changes to these three antioxidant enzymes.

Sensitive Raman detection of human recombinant interleukin-6 mediated by DCDR/GERS hybrid platforms

Recombinant human interleukin-6 (IL-6) is a key cytokine that plays an important role in the immune system and inflammatory response, explaining why any modification of its concentration in biological fluids is considered a signal of a pathological condition. Therefore, it is important to develop alternative, highly sensitive and reliable analytical methodologies to detect and identify this analyte in biological fluids. Herein, we present a proof of concept for the development of a new analytical hybrid platform for IL-6 detection that is based on the combination of drop-coating deposition Raman (DCDR) spectroscopy and graphene-enhanced Raman spectroscopy (GERS) effects. The sensitivity limits for IL-6 detection were found to be a function of the type of substrate used. When a 1 μL droplet of IL-6 solution is deposited and dried on an Si substrate, a DCDR effect occurs, and a detection limit below 1 ng mL-1 is obtained; however, when the same is performed using a hybrid substrate of reduced graphene oxide and silicon (rGO/Si), the joint action of DCDR and GERS effects results in a detection limit well below 1 pg mL-1. It is important to note that this result implies the absolute mass detection of 1 fg of IL-6. In summary, the Raman spectroscopy DCDR/GERS analytical platform proposed here allows the reliable identification of, as well as the very sensitive detection of, IL-6 and promises to improve the performance of clinical evaluations of this biomarker that are currently in use. In this study, the Raman spectra of IL-6 in powder and solution, together with the corresponding band assignment, are presented for the first time in the literature.

Patterning Perfluorinated Surface with Graphene Oxide and the Microarray Applications

A method was developed to pattern the surface of perfluorinated materials with graphene oxide thin film, and various biological applications of the patterned perfluorinated surface were illustrated. Perfluorinated surfaces such as Teflon, Cytop, and other perfluorinated materials are known to be both hydrophobic and oleophobic, with low adhesion for most materials. Modifying the perfluorinated surfaces has been difficult due to the extraordinary chemical inertness, which limits the applications of perfluorinated materials as anti-fouling substrates. Herein we successfully patterned Cytop surfaces with graphene oxide. Patterns of the graphene oxide thin film with feature dimension down to 40 microns were formed and remained stable on the Cytop surface against washing with water, ethanol and acetone. The graphene oxide thin film on the Cytop surface allowed non-specific protein adsorption. To illustrate the applications of the patterned Cytop surface, we used the patterned Cytop surface as the substrate to study the protein-protein interactions, stem cell culture, and stem cell proliferation.

Graphene oxide touches blood: in vivo interactions of bio-coronated 2D materials

Graphene oxide is the hot topic in biomedical and pharmaceutical research of the current decade. However, its complex interactions with human blood components complicate the transition from the promising in vitro results to clinical settings. Even though graphene oxide is made with the same atoms as our organs, tissues and cells, its bi-dimensional nature causes unique interactions with blood proteins and biological membranes and can lead to severe effects like thrombogenicity and immune cell activation. In this review, we will describe the journey of graphene oxide after injection into the bloodstream, from the initial interactions with plasma proteins to the formation of the "biomolecular corona", and biodistribution. We will consider the link between the chemical properties of graphene oxide (and its functionalized/reduced derivatives), protein binding and in vivo response. We will also summarize data on biodistribution and toxicity in view of the current knowledge of the influence of the biomolecular corona on these processes. Our aim is to shed light on the unsolved problems regarding the graphene oxide corona to build the groundwork for the future development of drug delivery technology.

Enhancement of the polymerase chain reaction by tungsten disulfide

In this paper, we demonstrated that the polymerase chain reaction (PCR) could be dramatically enhanced by tungsten disulfide (WS₂). The results showed that the PCR efficiency could be increased with the addition of WS₂ and at a lower annealing temperature, which simplified the design and operation of PCR. Moreover, PCR with WS₂ showed better specificity and efficiency as compared with graphene oxide (GO) for a human genome DNA sample. The mechanism of enhancement of PCR by WS₂ was discussed according to the typical structure and the characteristics of selective adsorption of single-stranded DNA by WS₂. The results suggested that WS₂ as a PCR enhancer can promote the PCR performance and extend the PCR application in biomedical research, clinical diagnostic, and bioanalysis.

WS₂ as a PCR enhancer can promote the PCR performance and extend PCR bioapplication.

An ultrasensitive fluorescent aptasensor for detection of cancer marker proteins based on graphene oxide-ssDNA

A novel biosensing platform was developed by integrating a new ssDNA aptamer and graphene oxide (GO) for highly sensitive and selective detection of liver cancer biomarkers (alpha-fetoprotein, AFP). The key concept of this biosensing platform is that the fluorescence of dye-modified ssDNA can be effectively quenched by GO after forming the hybrid structure of graphene oxide-ssDNA (GO-ssDNA). The AFP can selectively react with GO-ssDNA and lead to the decomposition of GO-ssDNA, which results in the recovery of fluorescence, and an increase in fluorescence intensity with the increasing concentration of AFP in the range of 0 to 300 pg mL-1. The linear range was obtained from 1 to 150 pg mL-1 and the detection limit was 0.909 pg mL-1. Moreover, this biosensing platform can be applied to serum and cell imaging for the detection of AFP. The results show that the proposed biosensor has great potential application in AFP-related clinical diagnosis and research.