Urease as a Nanoreactor for Growing Crystalline ZnO Nanoshells at Room Temperature

Nanoparticles for Biomedical Application and Their Synthesis

Tremendous developments in nanotechnology have revolutionized the impact of nanoparticles (NPs) in the scientific community and, more recently, in society. Nanomaterials are by their definition materials that have at least one dimension in range of 1 to 100 nm. Nanoparticles are found in many types of different technological and scientific applications and innovations, from delicate electronics to state-of-the-art medical treatments. Medicine has recognized the importance of polymer materials coated with NPs and utilizes them widely thanks to their excellent physical, chemical, antibacterial, antimicrobial, and protective properties. Emphasis is given to their biomedical application, as the nanoscale structures are in the range of many biological molecules. Through this, they can achieve many important features such as targeted drug delivery, imaging, photo thermal therapy, and sensors. Moreover, by manipulating in a "nano-scale" range, their characteristic can be modified in order to obtain the desired properties needed in particular biomedical fields, such as electronic, optical, surface plasmon resonance, and physic-chemical features.

Investigation of ellagic acid rich-berry extracts directed silver nanoparticles synthesis and their antimicrobial properties with potential mechanisms towards Enterococcus faecalis and Candida albicans

The essential goals of this present study are to elucidate the formation mechanism of ellagic acid rich-blackberry, BBE, (Rubus fruticosus L.) and raspberry, RBE, (Rubus idaeus L.) extracts directed silver nanoparticles and to investigate thier antimicrobial properties towards model dental pathogens E. faecalis and C. albicans compared to BBE, RBE, NaOCl, CHX and EDTA. Both %5 w/w of BBE and RBE reacted with 5 mM Ag ⁺ ions at room temperature (25 °C) under mild-stirring, the formation of BBE and RBE directed b@Ag NP and r@Ag NP was monitored over time by using an Uv-vis spectrophotometer. Both b@Ag and r@Ag NPs were also complementarily characterized with SEM and FT-IR. In terms of the antimicrobial studies, b@Ag NP, r@Ag NP, %5 BBE and RBE, 5 mM AgNO₃, %5 NaOCl, %1,5 CHX and %15 EDTA were separately incubated with E. faecalis and C. albicans suspensions. The results were evaluated with student t-test using GraphPad Prism 8.0.1 statistical software (P < 0.05). While formation of b@Ag NP was confirmed with characteristic absorbance at ~435 nm in 20 min (min) of incubation, r@Ag NP did not give absorbance till 80 min owing to concentration of ellagic acid acted as a reducing and stabilizng agent for formation of the Ag NPs. Intrestingly, 50 ppm r@Ag NP inactivated ∼89% and ∼99% of E. faecalis and C. albicans cell, respectively, ∼25% and ∼40% cell inactivations for E. faecalis and C. albicans were observed respectively with 50 ppm b@Ag NP. We showed that 50 ppm r@Ag NP has effective antimicrobial property as much as mostly used %5 NaOCl and %1,5 CHX solutions.

Novel synthesis of ZnO by Ice-cube method for photo-inactivation of E. coli

The ZnO particle with varieties of morphology was prepared from ice-cube of zinc ammonium complex at boiling water surface in 1 min induction of thermal shock. The zinc ammonium complex in ice cube was developed using zinc acetate and biologically activated ammonia in 1 hr and kept in the freezer. Temperature gradient behaviour of the water medium during thermal shock was captured by the thermal camera and thermometer. Morphology study revealed a variety of flower-like ZnO particles with variable size from 1.0 to 2.5 μm. Further, ZnO particle morphologies were tuned by adding trisodium citrate and hexamine to obtain uniform spherical (2–3 μm) and flower (3–4 μm) shapes, respectively. XRD patterns revealed that all ZnO samples are of a hexagonal structure. Photocatalytic inactivation of E. coli has been investigated using various particle morphologies of ZnO in an aqueous solution/overcoated glass slide under sunlight. The photo-inactivation of E. coli by ZnO particles in suspension condition was better when compared to a coated glass slide method. AFM study confirmed the destruction of bacterial cell wall membrane by the photocatalytic effect. The particles morphology of photocatalyst is well dependent on antibacterial activity under sunlight.

Fabrication of nanohybrids assisted by protein-based materials for catalytic applications

Protein units and architectures were applied as supports in the synthesis of metal and metal oxide nanoparticles for environmentally benign catalytic applications.

Comprehensive facts on dynamic antimicrobial properties of polysaccharides and biomolecules-silver nanoparticle conjugate

Based on progress for the green synthesis of nanoparticle (NPs), the mushrooms have also been utilized extensively for the biogenic synthesis of NPs. In recent years, silver NPs have been fabricated using mushrooms. The antimicrobial drugs are efficient to control the infectious diseases, but due to widespread of drugs, microbes became resistant to drugs, which demands develop of new bioactive agents. The silver NPs have been recognized as efficient broad spectrum antimicrobial agents, which have been fabricated using polysaccharides from mushrooms as reducing and capping agent. This review focused on the comprehensive study that deals silver NPs polysaccharides from Pleurotus mushroom, their synthesis mechanism, action mechanism of silver NPs and their characterization using advanced techniques i.e., ultraviolet-visible (UV-Vis), dynamic light scattering, Fourier transformation infrared spectroscopy (FT-IR), scanning electron microscopy (SEM), energy dispersive spectroscopy (EDS), transmission electron microscopy (TEM) and XRD. The Pleurotus mushroom showed promising efficiency for the biogenic synthesis of polysaccharides‑silver NPS and as-prepared NPs showed excellent antimicrobial activity.

Sub-10 nm Resolution Patterning of Pockets for Enzyme Immobilization with Independent Density and Quasi-3D Topography Control

The ability to precisely control the localization of enzymes on a surface is critical for several applications including biosensing, bionanoreactors, and single molecule studies. Despite recent advances, fabrication of enzyme patterns with resolution at the single enzyme level is limited by the lack of lithography methods that combine high resolution, compatibility with soft, polymeric structures, ease of fabrication, and high throughput. Here, a method to generate enzyme nanopatterns (using thermolysin as a model system) on a polymer surface is demonstrated using thermochemical scanning probe lithography (tc-SPL). Electrostatic immobilization of negatively charged sulfonated enzymes occurs selectively at positively charged amine nanopatterns produced by thermal deprotection of amines along the side-chain of a methacrylate-based copolymer film via tc-SPL. This process occurs simultaneously with local thermal quasi-3D topographical patterning of the same polymer, offering lateral sub-10 nm resolution, and vertical 1 nm resolution, as well as high throughput (5.2 × 10⁴ μm²/h). The obtained single-enzyme resolution patterns are characterized by atomic force microscopy (AFM) and fluorescence microscopy. The enzyme density, the surface passivation, and the quasi-3D arbitrary geometry of these patterned pockets are directly controlled during the tc-SPL process in a single step without the need of markers or masks. Other unique features of this patterning approach include the combined single-enzyme resolution over mm² areas and the possibility of fabricating enzymes nanogradients.

Superstructure of silver crystals in a caged framework for plasmonic inverse sensing

Lowering the limit of detection is key to the design of sensors. Conventional transducers generate a signal proportional to the concentration of the molecule, but low concentrations are still difficult to detect with confidence. Here we present an inverse sensor that induces a signal that is larger when the target molecule is less concentrated. Each sensor consists of a micro-pot reactor with an inner volume for storing the reactants and the cage walls, over which many silver hotspots are spread, working as optical antenna to produce amplification of the signal. The aim is to attain inverse sensitivity during the enzymatic reaction, where reduction of the silver occurs. We demonstrate the sensitivity and robustness of this approach by detecting glucose concentrations down to 10^-12 M.

High-throughput protein nanopatterning

We demonstrate a high resolution and high-throughput patterning method to generate protein nanopatterns with sub-10 nm resolution by using thermochemical scanning probe lithography.

Interactions between Metal Oxides and Biomolecules: from Fundamental Understanding to Applications

Metallo-oxide (MO)-based bioinorganic nanocomposites promise unique structures, physicochemical properties, and novel biochemical functionalities, and within the past decade, investment in research on materials such as ZnO, TiO₂, SiO₂, and GeO₂ has significantly increased. Besides traditional approaches, the synthesis, shaping, structural patterning, and postprocessing chemical functionalization of the materials surface is inspired by strategies which mimic processes in nature. Would such materials deliver new technologies? Answering this question requires the merging of historical knowledge and current research from different fields of science. Practically, we need an effective defragmentation of the research area. From our perspective, the superficial accounting of material properties, chemistry of the surfaces, and the behavior of biomolecules next to such surfaces is a problem. This is particularly of concern when we wish to bridge between technologies in vitro and biotechnologies in vivo. Further, besides the potential practical technological efficiency and advantages such materials might exhibit, we have to consider the wider long-term implications of material stability and toxicity. In this contribution, we present a critical review of recent advances in the chemistry and engineering of MO-based biocomposites, highlighting the role of interactions at the interface and the techniques by which these can be studied. At the end of the article, we outline the challenges which hamper progress in research and extrapolate to developing and promising directions including additive manufacturing and synthetic biology that could benefit from molecular level understanding of interactions occurring between inanimate (abiotic) and living (biotic) materials.

Redox mediated synthesis of hierarchical Bi2O3/MnO2 nanoflowers: a non-enzymatic hydrogen peroxide electrochemical sensor

Redox mediated synthesis of Bi₂O₃/MnO₂ nanoflowers for efficient electrochemical sensing of hydrogen peroxide down to 0.05 μM.

A semipermeable enzymatic nanoreactor as an efficient modulator for reversible pH regulation

Here we propose a new concept for the fabrication of a semipermeable enzymatic nanoreactor as an efficient modulator to reversibly switch the pH of an aqueous environment. We used amino-functionalized, expanded mesoporous silica nanoparticles (EMSN) as a model nanocarrier to load enzymes. In order to protect enzymes from the interference of a complicated environment, polyelectrolyte multilayers (PEMs) were coated on the surface of the EMSN through layer by layer (LbL) assembly. These PEMs can serve as semipermeable membranes, allowing small molecules to diffuse in and out freely while trapping the enzymes in the nanoreactors. Compared with traditional electrochemical stimulation or optical control methods, our enzymatic regulation platform is easy to operate without complicated instruments. In addition, this system can cover a wide range of pH values and conveniently regulate pH values by simply controlling the concentrations of catalysts or reactants. Meanwhile, this strategy could be generalized to other enzymes or nanocarriers to achieve reversible pH regulation for different purposes. The switched pH values can be implemented for the modulation of the conformational changes of nucleic acids and activation of the charge conversion in drug delivery applications.

Biogenic growth of alloys and core-shell nanostructures using urease as a nanoreactor at ambient conditions

Biomineralization is an extremely efficient biologically guided process towards the advancement of nano-bio integrated materials. As a prime module of the natural world, enzymes are expected to play a major role in biogenic growth of inorganic nanostructures. Although there have been developments in designing enzyme-responsive nanoparticle systems or generation of inorganic nanostructures in an enzyme-stimulated environment, reports regarding action of enzymes as reducing agents themselves for the growth of inorganic nanoparticles still remains elusive. Here we present a mechanistic investigation towards the synthesis of metal and metallic alloy nanoparticles using a commonly investigated enzyme, Jack bean urease (JBU), as a reducing as well as stabilizing agent under physiological conditions. The catalytic functionality of urease was taken advantage of towards the development of metal-ZnO core-shell nanocomposites, making urease an ideal bionanoreactor for synthesizing higher order nanostructures such as alloys and core- shell under ambient conditions.

Bio-inspired morphological evolution of zinc oxide nanostructures on a tunable enzyme platform

Diamine oxidase is a copper-containing enzyme with interesting structural dynamics sensitive to environmental conditions. The present work explores the applicability of the system as a tunable platform for the shape and size selective synthesis of zinc oxide nanoparticles under ambient conditions. Significant changes in the nanoscale morphology of ZnO have been observed, using scanning electron microscopy, with respect to changes in pH and gas atmosphere of the medium. More specifically, hexagonal plates of nanoscale ZnO were formed at pH below the isoelectric point of the enzyme and spherical particles at alkaline pH. Interestingly the average particle size of ZnO nanostructures increases with increasing oxygen content at acidic pH while the opposite trend is noticed at alkaline pH. The observations are explained on the basis of changes in the enzyme's surface charge, conformation and redox potential using a combination of techniques like zeta potential measurements, FTIR spectroscopy, fluorescence spectroscopy, open circuit potential studies and cyclic voltammetry. Thus the present work demonstrates the applicability of an enzyme as a dynamic bio-template for the synthesis of a multitude of ZnO nanostructures which are expected to add newer insight into bottom-up fabrication of oxide nanostructures.

Enzymes as bionanoreactors: glucose oxidase for the synthesis of catalytic Au nanoparticles and Au nanoparticle–polyaniline nanocomposites

Biogenic synthesis of Au nanoparticles and Au nanoparticle–polyaniline composite could be accomplished taking advantage of the reducing and catalytic activity of glucose oxidase.

Plasmonic ELISA for the ultrasensitive detection of disease biomarkers with the naked eye

In resource-constrained countries, affordable methodologies for the detection of disease biomarkers at ultralow concentrations can potentially improve the standard of living. However, current strategies for ultrasensitive detection often require sophisticated instruments that may not be available in laboratories with fewer resources. Here, we circumvent this problem by introducing a signal generation mechanism for biosensing that enables the detection of a few molecules of analyte with the naked eye. The enzyme label of an enzyme-linked immunosorbent assay (ELISA) controls the growth of gold nanoparticles and generates coloured solutions with distinct tonality when the analyte is present. Prostate specific antigen (PSA) and HIV-1 capsid antigen p24 were detected in whole serum at the ultralow concentration of 1 × 10(-18) g ml(-1). p24 was also detected with the naked eye in the sera of HIV-infected patients showing viral loads undetectable by a gold standard nucleic acid-based test.

Biomimetic alignment of zinc oxide nanoparticles along a peptide nanofiber

Zinc oxide (ZnO) has potential applications in solar cells, chemical sensors, and piezoelectronic and optoelectronic devices due to its attractive physical and chemical properties. Recently, a solution-phase method has been used to synthesize ZnO crystals with diverse (from simple to hierarchical) nanostructures that is simple, of low cost, and scalable. This method requires template molecules to control the morphology of the ZnO crystals. In this paper, we describe the design and synthesis of two short peptides (RU-003,Ac-AIEKAXEIA-NH(2); RU-027, EAHVMHKVAPRPGGGAIEKAXEIA-NH(2); X = l-2-naphthylalanine) and the characterization of their self-assembled nanostructures. We also report their potential for ZnO mineralization and the alignment of ZnO nanoparticles along peptide nanostructures at room temperature. Interestingly, nonapeptide RU-003 predominantly formed a straight fibrous structure and induced the nucleation of ZnO at its surface, leading to an alignment of ZnO nanoparticles along a peptide nanofiber. This novel method holds promise for the room-temperature fabrication of ZnO catalysts with increased specific surface area, ZnO-gated transistors, and ZnO-based nanomaterials for optical applications.

Plasmonic nanosensors with inverse sensitivity by means of enzyme-guided crystal growth

Lowering the limit of detection is key to the design of sensors needed for food safety regulations, environmental policies and the diagnosis of severe diseases. However, because conventional transducers generate a signal that is directly proportional to the concentration of the target molecule, ultralow concentrations of the molecule result in variations in the physical properties of the sensor that are tiny, and therefore difficult to detect with confidence. Here we present a signal-generation mechanism that redefines the limit of detection of nanoparticle sensors by inducing a signal that is larger when the target molecule is less concentrated. The key step to achieve this inverse sensitivity is to use an enzyme that controls the rate of nucleation of silver nanocrystals on plasmonic transducers. We demonstrate the outstanding sensitivity and robustness of this approach by detecting the cancer biomarker prostate-specific antigen down to 10(-18) g ml(-1) (4 × 10(-20) M) in whole serum.

DNA-templated semiconductor nanocrystal growth for controlled DNA packing and gene delivery

DNA-templated semiconductor nanocrystal (SNC) growth represents a facile means to generate bioactive hybrid nanostructures by directly integrating DNA molecules and luminescent SNCs together via a one-step synthesis, which has been applied to biosensing and cell imaging. In this study we for the first time demonstrated that DNA-templated CdS SNC growth could also be used to rationally tune the structures and activities of large DNA molecules. We explored the synergistic effects of nanocrystal growth on the sizes and charges of DNA molecules and demonstrate that the CdS growth-induced DNA packing could be used as a smart gene delivery system. Herein we used DNA plasmids encoding intact enhanced green fluorescence protein (EGFP) genes as templates to grow CdS SNCs and found that the stepwise growth of CdS nanocrystals can spontaneously induce DNA condensation and negative charge shielding in a synergistic manner. The condensed DNA plasmids exhibited efficient cellular uptake and a relative gene transfection efficiency of 32%. The transfection efficiency can be further doubled in the presence of chloroquine. We elucidated that the gene transfection and expression is controlled by reversible DNA packing, where ligand exchange of DNA with intracellular glutathione molecules plays a critical role in the recovery of DNA plasmids for gene expression.

Supramolecular Structures of Enzyme Clusters

The structural characterization of subtilisin mesoscale clusters, which were previously shown to induce supramolecular order in biocatalytic self-assembly of Fmoc-dipeptides, was carried out by synchrotron small-angle X-ray, dynamic, and static light scattering measurements. Subtilisin molecules self-assemble to form supramolecular structures in phosphate buffer solutions. Structural arrangement of subtilisin clusters at 55 °C was found to vary systematically with increasing enzyme concentration. Static light scattering measurements showed the cluster structure to be consistent with a fractal-like arrangement, with fractal dimension varying from 1.8 to 2.6 with increasing concentration for low to moderate enzyme concentrations. This was followed by a structural transition around the enzyme concentration of 0.5 mg mL-1 to more compact structures with significantly slower relaxation dynamics, as evidenced by dynamic light scattering measurements. These concentration-dependent supramolecular enzyme clusters provide tunable templates for biocatalytic self-assembly.

Applications of peptide and protein-based materials in bionanotechnology

In this critical review we highlight recent advances in the use of peptide- and protein-related materials as smart building blocks in nanotechnology. Peptides and proteins can be very practical for new material synthesis and device fabrications. For example, peptides and proteins have superior specificity for target binding as seen in the antibody recognition and this biological recognition function can be used to assemble them into specific structures and shapes in large scale, as observed in the S-layer protein assembly. Collagens are assembled from triple helix peptides in micron-size with precise recognition between peptides and these biological assemblies can undergo smart structural change with pH, ionic strength, temperature, electric/magnetic fields. In addition, assemblies of peptides can template complex 3D crystallization processes with catalytic function, thus enabling to grow various materials in physiological conditions at low temperature in aqueous solution. The biomimetic growth of nanomaterials in aqueous solution is extremely useful when they are applied to therapeutics and medical imaging in vivo since these nanomaterials will be well dispersed in bodies. Peptides also play significant roles in signal transduction pathways in cells. For example, neuropeptides are used as neurotransmitters between synapses and these peptides bind receptors on the surface of cells to cascade the signal transduction. These versatile functions of peptides are extremely practical and here we discuss them with examples of relevant applications such as nanoreactors, sensors, electronics, and stimulus-responsive materials. It should be noted that peptide/protein assemblies can be applied to build up micron-scale materials that still feature excellent nano-scale ensembles, which essentially bridges the nano-world and the micro-world (86 references).

Interactions of zeatin with gold ions and biomimetic formation of gold complexes and nanoparticles

We report here a simple one-pot synthesis for the preparation of gold nanoparticles biomimetically using zeatin nanostructures. Zeatin, a plant phytohormone was self-assembled into nanospheres. Those nanospheres transformed into nanoribbons over a period of time upon formation of zeatin-gold (III) complexes in the presence of hydrogen tetrachloroaurate. Further, upon heating, gold nanoparticles were formed due to mineralization in the presence of zeatin nanofibers. The effect of pH on the self-assembly of zeatin and the formation of gold nanoparticles, was investigated. We also compared the preparation of gold nanoparticles in the presence of zeatin nanoribbons, using a known reducing agent such as hydrazine, which resulted in loss of morphology control and alignment of the gold nanoparticles. Thus zeatin nanoribbons act as templates which allow for size as well as alignment control for the gold nanoparticles. The materials obtained were analyzed using FTIR, absorbance spectroscopy as well as by transmission electron microscopy, EDX, SEM and AFM. The method involved here is a mild, green-synthetic process, which could be used for facile preparation of morphology controlled gold nanoparticles and may open up new avenues for device fabrications for a wide range of applications, particularly in optoelectronics and sensors.

Exploiting biocatalysis in peptide self-assembly

This review article covers recent developments in the use of enzyme-catalyzed reactions to control molecular self-assembly (SA), an area that merges the advantages of biocatalysis with soft materials self-assembly. This approach is attractive because it combines biological (chemo-, regio-, and enantio-) selectivity with the versatility of bottom up nanofabrication through dynamic SA. We define enzyme-assisted SA (e-SA) as the production of molecular building blocks from nonassembling precursors via enzymatic catalysis, where molecular building blocks form ordered structures via noncovalent interactions. The molecular design of SA precursors is discussed in terms of three key components related to (i) enzyme recognition, (ii) molecular switching mechanisms, and (iii) supramolecular interactions that underpin SA. This is followed by a discussion of a number of unique features of these systems, including spatiotemporal control of nucleation and structure growth, the possibility of controlling mechanical properties and the defect correcting and component selecting capabilities of systems that operate under thermodynamic control. Applications in biomedicine (biosensing, controlled release, matrices for wound healing, controlling cell fate by gelation) and bio(nano)technology (biocatalysts immobilization, nanofabrication, templating, and intracellular imaging) are discussed. Overall, e-SA allows for unprecedented control over SA processes and provides a step forward toward production of nanostructures of higher complexity and with fewer defects as desired for next generation nanomaterials.

A phospho-directed macroporous alumina-silica nanoreactor with multi-functions

A phospho-directed nanoreactor with multiple functions is reported. Alumina-functionalized macroporous ordered silica foams (Al-MOSF) have been developed with large pore size, high pore volume (1.6 cm(3)/g), and a surface area of 186 m(2)/g rich in coordination unsaturated Al species, which can be used as phospho-directed nanoreactors for integrated in situ digestion and in situ phosphoisolation. By directly adding Al-MOSF to the conventional in-solution digestion system, both enzymes and proteins are quickly enriched in the macropores of the reactor to achieve a fast proteolysis without increasing the enzyme/protein concentration or using a preimmobilization process, thus the digestion time and the cost can be greatly reduced. Meanwhile, due to the chemo-affinity between alumina and phosphor groups, the Al-MOSF reactor can in situ isolate specific products of the enzymatic reaction (i.e., phosphopeptides) and release the nonspecific peptides to the solution. This strategy is simple, efficient, and successfully applied in the detection of phosphoproteins in real samples.

Direct transformation from amorphous to crystalline calcium phosphate facilitated by motif-programmed artificial proteins

An animal's hard tissue is mainly composed of crystalline calcium phosphate. In vitro, small changes in the reaction conditions affect the species of calcium phosphate formed, whereas, in vivo, distinct types of crystalline calcium phosphate are formed in a well-controlled spatiotemporal-dependent manner. A variety of proteins are involved in hard-tissue formation; however, the mechanisms by which they regulate crystal growth are not yet fully understood. Clarification of these mechanisms will not only lead to the development of new therapeutic regimens but will also provide guidance for the application of biomineralization in bionanotechnology. Here, we focused on the peptide motifs present in dentin matrix protein 1 (DMP1), which was previously shown to enhance hydroxylapatite (HAP) formation when immobilized on a glass substrate. We synthesized a set of artificial proteins composed of combinatorial arrangements of these motifs and successfully obtained clones that accelerated formation of HAP without immobilization. Time-resolved static light-scattering analyses revealed that, in the presence of the protein, amorphous calcium phosphate (ACP) particles increased their fractal dimension and molecular mass without increasing their gyration radii during a short period before precipitation. The protein thus facilitated reorganization of the internal structure of amorphous particles into ordered crystalline states, i.e., the direct transformation of ACP to HAP, thereby acting as a nucleus for precipitation of crystalline calcium phosphate. Without the protein, the fractal dimension, molecular mass, and gyration radii of ACP particles increased concurrently, indicating heterogeneous growth transformation.