Binding of nucleobases with graphene and carbon nanotube: a review of computational studies

Functionalized carbon nanotubes (CNTs) constitute a new class of nanostructured materials that have vast applications in CNT purification and separation, biosensing, drug delivery, etc. Hybrids formed from the functionalization of CNT with biological molecules have shown interesting properties and have attracted great attention in recent years. Of particular interest is the hybridization of single- or double-stranded nucleic acid (NA) with CNT. Nucleobases, as the building blocks of NA, interact with CNT and contribute strongly to the stability of the NA–CNT hybrids and their properties. In this work, we present a thorough review of previous studies on the binding of nucleobases with graphene and CNT, with a focus on the simulation works that attempted to evaluate the structure and strength of binding. Discrepancies among these works are identified, and factors that might contribute to such discrepancies are discussed.     

Hydrogen dissociation on diene-functionalized carbon nanotubes

Chemical functionalization of a zigzag carbon nanotube (CNT) with 1, 3-cyclohexadiene (CHD), previously reported by experimentalists, has been investigated in the present study using density functional theory in terms of energetic, geometric, and electronic properties. Then, the thermodynamic and kinetic feasibility of H₂ dissociation on the pristine and functionalized CNTs have been compared. The dissociation energy of the H₂ molecule on the pristine and functionalized CNT has been calculated to be about ?1.00 and ?1.55 eV, while the barrier energy is found to be about 3.70 and 3.51 eV, respectively. Therefore, H₂ dissociation is thermodynamically more favorable on the CNT-CHD system than on the pristine tube, while the favorability of the dissociation on the pristine tube is higher in term of kinetics.     

Carbon nanotube functionalization with carboxylic derivatives: a DFT study

Chemical functionalization of a single-walled carbon nanotube (CNT) with different carboxylic derivatives including –COOX (X?=?H, CH₃, CH₂NH₂, CH₃Ph, CH₂NO₂, and CH₂CN) has been theoretically investigated in terms of geometric, energetic, and electronic properties. Reaction energies have been calculated to be in the range of ?0.23 to ?7.07 eV. The results reveal that the reaction energy is increased by increasing the electron withdrawing character of the functional groups so that the relative magnitude order is ?CH₂NO₂?>?CH₂CN?>?H?>?CH₂Ph?>?CH₃?>?CH₂NH₂. The chemical functionalization leads to an increase in HOMO/LUMO energy gap of CNT by about 0.32 to 0.35 eV (except for ?H). LUMO, HOMO, and Fermi level of the CNT are shifted to lower energies especially in the case of ?CH₂NO₂ and _?CH₂CN functional groups. Therefore, it leads to an increment in work function of the tube, impeding the field electron emission.     

Radiopaque organic-inorganic hybrids based on poly(D,L-lactide)

Hybrid organic-inorganic nanocomposites were prepared starting from alpha,omega-triethoxysilane-terminated poly(d,l-lactic acid) (PDLLA) to be used as potential radiopaque biocompatible coatings for medical devices. The synthesis of the organic phase precursors of given chain length was achieved via anionic polymerization of d,l-lactide using a bifunctional initiator and subsequent triethoxysilane functionalization of the end groups. PDLLA-based ceramers (ceramic polymers) were then synthesized by the sol-gel process at room temperature (rt) in the presence of different amounts of tetraethoxysilane. The rt-synthesized hybrids were then cured (at 80 or 130 degrees C), and their thermal and viscoelastic properties were investigated. All obtained hybrids were optically transparent, due to the nanometric dimension of the silica particles, and yielded clearly contrasted radiographic images.     

Noncovalent and covalent functionalization of a (5, 0) single-walled carbon nanotube with alanine and alanine radicals

We have systematically investigated the noncovalent and covalent adsorption of alanine and alanine radicals, respectively, onto a (5, 0) single-walled carbon nanotube using first-principles calculation. It was found that XH···π (X = N, O, C) interactions play a crucial role in the non-ovalent adsorption and that the functional group close to the carbon nanotube exhibits a significant influence on the binding strength. Noncovalent functionalization of the carbon nanotube with alanine enhances the conductivity of the metallic (5, 0) nanotube. In the covalent adsorption of each alanine radical onto a carbon nanotube, the binding energy depends on the adsorption site on CNT and the electronegative atom that binds with the CNT. The strongest complex is formed when the alanine radical interacts with a (5, 0) carbon nanotube through the amine group. In some cases, the covalent interaction of the alanine radical introduces a half-filled band at the Fermi level due to the local sp ³ hybridization, which modifies the conductivity of the tube.     

Theoretical investigations on the functionalization of carbon nanotubes

In this paper, our recent work concerning theoretical studies on the functionalization of carbon nanotubes (CNTs) is reviewed. In particular, two different aspects of the functionalization process are taken into account. On the one hand, the chemical functionalization of the sidewall is exploited as a way to develop nanostructured gas sensing devices. On the other hand, we investigated the possibility of functionalizing the sidewall with transition metal complexes, thus extending the concepts of organometallic chemistry to CNTs. Calculations were performed by applying statical and dynamical (Car-Parrinello) density functional theory methods, as well as hybrid (quantum mechanics/molecular mechanics) schemes. The structural and electronic peculiarities of the CNT model under study, due, for example to the presence of defects, were found to play a crucial role in the modelization of the functionalization process. In most cases, the use of realistic models was essential to achieve a full agreement with experiments.     

Coupling of mechanical and electronic properties of carbon nanotubes

Because of the potential importance of carbon nanotubes (CNT) in renewable energy and other fields, molecular orbital ab initio calculations are used to study the relation between mechanical and electronic properties of such structures. We estimate a modulus of elasticity of 1.3 TPa and find out that the mechanism of CNT structure deformation is dependent on their chirality. Armchair and chiral nanotubes have ductile deformation fracture while zigzag have both ductile and brittle; on the other hand armchair nanotubes fracture and form two caps while chiral nanotubes adopt a helical-structure conformation. In addition, the energy gap between occupied and unoccupied molecular orbitals increases when nanotubes are under plastic deformation. This strong coupling between mechanical and electrical properties can be used to tune CNT mechanically to specific electronic bandgaps, affecting directly their electromagnetic absorption properties.     

Theoretical investigation on the covalence in AgRnX and XAgRn (X = F – I)

CCSD(T) calculations were performed to investigate the stabilities and interaction mechanisms of the AgRnX and XAgRn (X?=?F – I) series. Dissociation energies and frontier orbital properties demonstrate an increased trend of stabilities. Ag spd hybrids and Rn/X sp hybrids come into the σ_Ag-Rn and σ_Ag-X bonding orbital. The nature of Ag-Rn, Ag-X and Rn-X interactions were investigated by atoms in molecules (AIM) theory. The negative energy density and positive Laplacian values, as well as small electron densities at bond critical points (BCPs), characterize the moderate strength with partial covalence of interactions. BCP properties (?G/V and G/ρ), electron density deformations and natural resonance theory (NRT) results display increased covalence down the periodic table.     

Atomistic simulations of interfacial mechanical characteristics of carbon nanotube/silicon nanocomposites

The interfacial mechanical properties of carbon nanotube (CNT)-reinforced silicon nanocomposites are investigated by using molecular dynamics simulation method. The hybrid potential that includes Tersoff_2 potential for Si–Si in the silicon matrix, AIREBO potential for C–C in the CNTs and the Lennard-Jones (LJ) potential for Si–C in the interface is used in the nanocomposite system. The effects of such parameters as the CNT chirality, the CNT diameter and the CNT embedded length, the defects (Vacancy defects, Stone–Wales defects), the size of model, the temperature, the bonding strength and the cut-off distance of the interfacial LJ potential of nanocomposites on the pull force and the average interfacial shear strength (ISS) are investigated and discussed. The results show that the toughness and the maximum tensile strength have been increased significantly by adding the CNTs into the Si matrix. Also by increasing the LJ bonding strength and the cut-off distance of the LJ potential, the pull force and the ISS are increased significantly. The CNT chirality, the CNT diameter and the CNT embedded length have a great influence on the pull force and the ISS, while the effects of temperature, the defects and the size of model are very slight.     

Sensitive amperometric immunosensor for alpha-fetoprotein based on carbon nanotube/gold nanoparticle doped chitosan film

A novel strategy for the fabrication of sensitive immunosensor to detect alpha-fetoprotein (AFP) in human serum has been proposed. The immunosensor was prepared by immobilizing AFP antigen onto the glassy carbon electrode (GC) modified by gold nanoparticles and carbon nanotubes doped chitosan (GNP/CNT/Ch) film. GNP/CNT hybrids were produced by one-step synthesis based on the direct redox reaction. The electrochemical properties of GNP/CNT/Ch films were characterized by impedance spectroscopy and cyclic voltammetry. It was indicated that GNP/CNT nanohybrid acted as an electron promoter and accelerated the electron transfer. Sample AFP, immobilized AFP, and alkaline phosphatase (ALP)-labeled antibody were incubated together for the determination based on a competitive immunoassay format. After the immunoassay reaction, the bound ALP label on the modified GC led to an amperometric response of 1-naphthyl phosphate (1-NP), which was changed with the different antigen concentrations in solution. Under the optimized experimental conditions, the resulting immunosensor could detect AFP in a linear range from 1 to 55 ng ml(-1) with a detection limit of 0.6 ng ml(-1). The proposed immunosensor, by using GNP/CNT/Ch as the immobilization matrix of AFP, offers an excellent amperometric response of ALP-anti-AFP to 1-NP. The immunosensor provided a new alternative to the application of other antigens or other bioactive molecules.     

Fabrication,Densification, and Replica Molding of 3D Carbon Nanotube Microstructures

The introduction of new materials and processes to microfabrication has, in large part, enabled many important advances in microsystems, lab-on-a-chip devices, and their applications. In particular, capabilities for cost-effective fabrication of polymer microstructures were transformed by the advent of soft lithography and other micromolding techniques ^{1, 2}, and this led a revolution in applications of microfabrication to biomedical engineering and biology. Nevertheless, it remains challenging to fabricate microstructures with well-defined nanoscale surface textures, and to fabricate arbitrary 3D shapes at the micro-scale. Robustness of master molds and maintenance of shape integrity is especially important to achieve high fidelity replication of complex structures and preserving their nanoscale surface texture. The combination of hierarchical textures, and heterogeneous shapes, is a profound challenge to existing microfabrication methods that largely rely upon top-down etching using fixed mask templates. On the other hand, the bottom-up synthesis of nanostructures such as nanotubes and nanowires can offer new capabilities to microfabrication, in particular by taking advantage of the collective self-organization of nanostructures, and local control of their growth behavior with respect to microfabricated patterns. Our goal is to introduce vertically aligned carbon nanotubes (CNTs), which we refer to as CNT "forests", as a new microfabrication material. We present details of a suite of related methods recently developed by our group: fabrication of CNT forest microstructures by thermal CVD from lithographically patterned catalyst thin films; self-directed elastocapillary densification of CNT microstructures; and replica molding of polymer microstructures using CNT composite master molds. In particular, our work shows that self-directed capillary densification ("capillary forming"), which is performed by condensation of a solvent onto the substrate with CNT microstructures, significantly increases the packing density of CNTs. This process enables directed transformation of vertical CNT microstructures into straight, inclined, and twisted shapes, which have robust mechanical properties exceeding those of typical microfabrication polymers. This in turn enables formation of nanocomposite CNT master molds by capillary-driven infiltration of polymers. The replica structures exhibit the anisotropic nanoscale texture of the aligned CNTs, and can have walls with sub-micron thickness and aspect ratios exceeding 50:1. Integration of CNT microstructures in fabrication offers further opportunity to exploit the electrical and thermal properties of CNTs, and diverse capabilities for chemical and biochemical functionalization ³.     

Sensitive amperometric immunosensor for α-fetoprotein based on carbon nanotube/gold nanoparticle doped chitosan film

A novel strategy for the fabrication of sensitive immunosensor to detect α-fetoprotein (AFP) in human serum has been proposed. The immunosensor was prepared by immobilizing AFP antigen onto the glassy carbon electrode (GC) modified by gold nanoparticles and carbon nanotubes doped chitosan (GNP/CNT/Ch) film. GNP/CNT hybrids were produced by one-step synthesis based on the direct redox reaction. The electrochemical properties of GNP/CNT/Ch films were characterized by impedance spectroscopy and cyclic voltammetry. It was indicated that GNP/CNT nanohybrid acted as an electron promoter and accelerated the electron transfer. Sample AFP, immobilized AFP, and alkaline phosphatase (ALP)-labeled antibody were incubated together for the determination based on a competitive immunoassay format. After the immunoassay reaction, the bound ALP label on the modified GC led to an amperometric response of 1-naphthyl phosphate (1-NP), which was changed with the different antigen concentrations in solution. Under the optimized experimental conditions, the resulting immunosensor could detect AFP in a linear range from 1 to 55 ng ml⁻¹ with a detection limit of 0.6 ng ml⁻¹. The proposed immunosensor, by using GNP/CNT/Ch as the immobilization matrix of AFP, offers an excellent amperometric response of ALP-anti-AFP to 1-NP. The immunosensor provided a new alternative to the application of other antigens or other bioactive molecules.     

The structural, electronic, and optical properties of ladder-type polyheterofluorenes: a theoretical study

The ladder-type polyheterofluorenes were investigated theoretically by using density functional theory (DFT) to reveal their optical and electronic properties for applications in organic optoelectronic devices. The incorporation of heteroatoms (B, Si, Ge, N, P, O, and S) into the ladder-type highly fused polyfluorene backbone can influence and modify the optoelectronic properties significantly. The functionalization on the heteroatoms allows for facile derivation and incorporation of substitutes to further tune the properties. Small geometry variations between the ground, anionic/cationic, the first excited singlet and triplet states were observed due to the very rigid ladder-type coplanar backbone. Ladder-type polycarbazole was predicted to have the highest HOMO and LUMO energy levels, polyphosphafluorene oxide have the lowest HOMO energy level, polyborafluorene have the lowest LUMO energy level and bandgap, and polysulfafluorene has the highest bandgap and triplet energy. The ladder-type carbazole and borafluorene show the highest hole and electron injection abilities respectively; while sulfafluorene has the highest electron transfer rate. Most ladder-type heterofluorenes show bipolar charge transport character suggested by the reorganization energy. All of them have significantly short effective conjugation length in comparison with linear conjugated polymers. Their absorption and emission spectra were also simulated and discussed. The diversified electronic and optical properties of the ladder-type polyheterofluorenes with the different incorporated heteroatom and the substituent on it indicate their broad potential applications in organoelectronics.     

Biometric approach in selecting plants for phytoaccumulation of uranium

This paper promotes the biometric classification system of plant cultivars, unique characteristics, in terms of the uranium (U) uptake, primarily in the function of the application for phytoremediation. It is known that the degree of adoption of U depends on the plant species and its morphological and physiological properties, but it is less known what impact have plants cultivars, sorts, and hybrids. Therefore, we investigated the U adoption in four cultivars of three plant species (corn, sunflower and soy bean). “Vegetation experiments were carried out in a plastic-house filled with soil (0.66 mgU) and with tailing (15.3 mgU kg^?1) from closed uranium mine Gabrovnica-Kalna southeast of Serbia”. Principal Component Analysis (PCA), Cluster Analysis (CA) and analysis of variance (ANOVA) were used for assessing the effect of different substrates cultivars, plant species and plant organs (root or shoot) on U uptake. Obtained results showed that a difference in U uptake by three investigated plant species depends not only of the type of substrate types and plant organs but also of their cultivars. Biometrics techniques provide a good opportunity for a better understanding the behavior of plants and obtaining much more useful information from the original data.     

Use of Nondefective Adenovirus-Simian Virus 40 Hybrids for Mapping the Simian Virus 40 Genome

A series of viable recombinants between adenovirus 2 (Ad2) and simian virus 40 (SV40) (nondefective Ad2-SV40 hybrids) have been isolated. The members of this series (designated Ad2(+)ND(1) through Ad2(+)ND(5)) differ from one another in the early SV40-specific antigens and the SV40-specific RNA species which they induce in infected cells. They also contain different amounts of SV40 DNA as shown by RNA-DNA hybridization techniques. We have examined the structure of the DNA molecules from these hybrids, using electron microscope heteroduplex mapping techniques. Each hybrid was found to contain a single segment of SV40 DNA of characteristic size covalently inserted at a unique location in the adenovirus 2 DNA molecule. The SV40 segments of the various hybrids formed an overlapping series with a common end point. When the results of the electron microscopic study were combined with data on antigen induction, it was found that a self-consistent map could be constructed which related specific regions of the SV40 genome to the induction of specific antigens. The order of these early SV40 antigen inducing regions in the SV40 DNA segments contained in the nondefective hybrids is: U antigen, tumor specific transplantation antigen, and T antigen with the U antigen region being nearest the common end point.     

Tungsten–Carbon Nanotube Composite Photonic Crystals as Thermally Stable Spectral‐Selective Absorbers and Emitters for Thermophotovoltaics

Thermophotovoltaics (TPVs) is a promising energy conversion technology which can harvest wide‐spectrum thermal radiation. However, the manufacturing complexity and thermal instability of the nanophotonic absorber and emitter, which are key components of TPV devices, significantly limit their scalability and practical deployment. Here, tungsten–carbon nanotube (W‐CNT) composite photonic crystals (PhCs) exhibiting outstanding spectral and angular selectivity of photon absorbance and thermal emission are presented. The W‐CNT PhCs are fabricated by nanoscale holographic interferometry‐based patterning of a thin‐film catalyst, modulated chemical vapor deposition synthesis of high‐density CNT forest nanostructures, and infiltration of the CNT forests with tungsten via atomic layer deposition. Owing to their highly stable structure and composition, the W‐CNT PhCs exhibit negligible degradation of optical properties after annealing for 168 hours at 1273 K, which exceeds all previously reported high‐temperature PhCs. Using the measured spectral properties of the W‐CNT PhCs, the system efficiency of a GaSb‐based solar TPV (STPV) that surpasses the Shockley–Queisser efficiency limit at modest operating temperatures and input powers is numerically predicted. These findings encourage further practical development of STPVs, and this scalable fabrication method for composite nanostructures could find other applications in electromagnetic metamaterials.     

Electrocatalytic oxidation of NADH with Meldola's blue functionalized carbon nanotubes electrodes

Meldola's blue (MB) functionalized carbon nanotubes (CNT) nanocomposite film (MB/CNT) electrode was prepared by non-covalent adsorbing MB on the surface of a carbon nanotubes modified glassy carbon electrode (CNT/GCE). Electrochemical behaviors of the resulting electrode were investigated thoroughly with cyclic voltammetry in the potential range of -0.6 to 0.2V, and two well-defined redox couples were clearly visualized. We also studied the electron transfer kinetics of MB loaded on CNT (MB/CNT) in comparison with that of MB on conventional graphite powder (MB/GP). The heterogeneous electron transfer rate constant (k(s)) of MB/CNT was calculated to be about three times larger than that of MB/GP. The accelerated electron transfer kinetics was attributed to the unique electrical and nanostructural properties of CNT supports as well as the interaction between MB and CNT. In connection with the oxidation of nicotinamide adenine dinucleotide (NADH), excellent electrocatalytic activities were observed at MB/CNT/GCE compared with MB/GP modified glassy carbon electrode (MB/GP/GCE). Based on the results, a new NADH sensor was successfully established using the MB/CNT/GCE. Under a lower operation potential of -0.1V, NADH could be detected linearly up to a concentration of 500 microM with an extremely lower detection limit of 0.048+/-0.02 microM estimated at a signal-to-noise ratio of 3. Sensitivity, selectivity, reproducibility and stability of the NADH sensor were also investigated and the main analytical data were also compared with those obtained with the MB/GP/GCE.     

Catalytic size control of multiwalled carbon nanotube diameter in xylene chemical vapor deposition process

Multiwalled carbon nanotubes (CNT) of diameters of 10-40 nm are synthesized on Fe and Co coated nm-scale catalyst support in a xylene chemical vapor deposition (CVD) process without the need for ferrocene iron source. Silica (∼40 nm diameter) and nanocrystalline Au (∼10 nm) are coated with a monolayer of amine, sulfonate, or thiol termination to ensure monolayer Fe loading, reduce Fe surface migration and reduce agglomeration of catalyst support particles during dispersion. Coordination with surface functionalization did not noticeably hinder Fe surface diffusion nor hinder catalytic activity of CNT formation. CNT diameters of ∼40 nm were seen for most chemical treatments. Functionalization of substrate (SiO₂/Si) surface with carboxylic termination aided in the dispersion of amine functionalized silica nanoparticles. Another approach to limit catalytic support to nm-scale dimensions was to deposit a thin film of Co (5-25 nm thick) in a multilayer structure that after etching left a nm-scale Co line at the edge of the pattern. In the ferrocene CVD process, CNT diameters down to 10 nm are controlled directly by the catalytic metal film thickness.