Detection of the conformational changes of Discosoma red fluorescent proteins adhered on silver nanoparticles-based nanocomposites via surface-enhanced Raman scattering.

Description of the relationship between protein structure and function remains a primary focus in molecular biology, biochemistry, protein engineering and bioelectronics. Moreover, the investigation of the protein conformational changes after adhesion and dehydration is of importance to tackle problems related to the interaction of proteins with solid surfaces. In this paper the conformational changes of wild-type Discosoma recombinant red fluorescent proteins (DsRed) adhered on silver nanoparticles (AgNPs)-based nanocomposites are explored via surface-enhanced Raman scattering (SERS). Originality in the present approach is to work on dehydrated DsRed thin protein layers in link with natural conditions during drying. To enable the SERS effect, plasmonic substrates consisting of a single layer of AgNPs encapsulated by an ultra-thin silica cover layer were elaborated by plasma process. The achieved enhancement of the electromagnetic field in the vicinity of the AgNPs is as high as 105. This very strong enhancement factor allowed detecting Raman signals from discontinuous layers of DsRed issued from solution with protein concentration of only 80 nM. Three different conformations of the DsRed proteins after adhesion and dehydration on the plasmonic substrates were identified. It was found that the DsRed chromophore structure of the adsorbed proteins undergoes optically assisted chemical transformations when interacting with the optical beam, which leads to reversible transitions between the three different conformations. The proposed time-evolution scenario endorses the dynamical character of the relationship between protein structure and function. It also confirms that the conformational changes of proteins with strong internal coherence, like DsRed proteins, are reversible.

Hyperdoped Si nanocrystals embedded in silica for infrared plasmonics.

We present the experimental realization of plasmonic hyperdoped Si nanocrystals embedded in silica via a combination of sequential low energy ion implantation and rapid thermal annealing. We show that phosphorus dopants are incorporated into the nanocrystal cores at concentrations up to six times higher than P solid solubility in bulk Si by combining 3D mapping with atom probe tomography and analytical transmission electron microscopy. We shed light on the origin of nanocrystal growth at high P doses, which we attribute to Si recoiling atoms generated in the matrix by P implantation, which likely increase Si diffusivity and feed the Si nanocrystals. We show that dopant activation enables partial nanocrystal surface passivation that can be completed by forming gas annealing. Such surface passivation is a critical step in the formation of plasmon resonance, especially for small nanocrystals. We find that the activation rate in these small doped Si nanocrystals is the same as in bulk Si under the same doping conditions.

Periodic Arrays of Dopants in Silicon by Ultralow Energy Implantation of Phosphorus Ions through a Block Copolymer Thin Film.

In this work, block copolymer lithography and ultralow energy ion implantation are combined to obtain nanovolumes with high concentrations of phosphorus atoms periodically disposed over a macroscopic area in a p-type silicon substrate. The high dose of implanted dopants grants a local amorphization of the silicon substrate. In this condition, phosphorus is activated by solid phase epitaxial regrowth (SPER) of the implanted region with a relatively low temperature thermal treatment preventing diffusion of phosphorus atoms and preserving their spatial localization. Surface morphology of the sample (AFM, SEM), crystallinity of the silicon substrate (UV Raman), and position of the phosphorus atoms (STEM- EDX, ToF-SIMS) are monitored during the process. Electrostatic potential (KPFM) and the conductivity (C-AFM) maps of the sample surface upon dopant activation are compatible with simulated I-V characteristics, suggesting the presence of an array of not ideal but working p-n nanojunctions. The proposed approach paves the way for further investigations on the possibility to modulate the dopant distribution within a silicon substrate at the nanoscale by changing the characteristic dimension of the self-assembled BCP film.

Silica-induced electron loss of silver nanoparticles.

Despite the frequent use of silver nanoparticles (Ag NPs) embedded in materials for medical or optical applications, the effect of the matrix on the nanoparticle properties remains largely unknown. This study aims to shed light on the effect of an amorphous silica matrix on the structure and charge distribution of 55- and 147-atom silver nanoparticles by means of dispersion-corrected DFT calculations. Particular attention is paid to nanoparticle size and concentration effects and to the impact of the presence of native defects in the matrix. Covalent bonding between the silver nanoparticles and the matrix is found to occur at the interface. Such interface reconstruction involves the breaking of Si-O bonds, which systematically leads to the formation of Ag-Si bonds, and in some cases, to the formation of Ag-O ones. Interestingly, these interface reconstructions are accompanied by electron depletion of the nanoparticles, a substantial number of electrons being transferred from the two outer shells of the Ag NPs to the surrounding silica medium. The electrons lost by the nanoparticles are captured by the Si atoms involved in the interface bonds, but also, unexpectedly, by the undercoordinated silica defects that act as electron pumps and by the atoms of the silica network inside a few angströms spherical shell around the silver nanoparticle. The numbers of interface bonds and electrons transferred to the surrounding silica shell appear to be proportional to the surface area of the Ag NP. The electronic extension within silica goes beyond that attributable to the Ag NP spill-out. The presence of additional electrons in the matrix, especially on defects, is consistent with the experimental literature.

Phosphorus doping of ultra-small silicon nanocrystals.

P-doped Si nanocrystals (radius

Physico-Chemical Characterization of the Interaction of Red Fluorescent Protein-DsRed With Thin Silica Layers.

The Discosoma recombinant red fluorescent (DsRed) protein is the latest member of the family of fluorescent proteins. It holds great promise for applications in biotechnology and cell biology. However, before being used for rational engineering, knowledge on the behavior of DsRed and the underlying mechanisms relating its structural stability and adsorption properties on solid surfaces is highly demanded. The physico-chemical analysis performed in this study reveals that the interaction of DsRed with SiO2 surfaces does not lead to complete protein denaturation after adsorption and dehydration. Nevertheless, the photoluminescence emission of dehydrated DsRed small droplets was found to be slightly red-shifted, peaking at 590 nm. The measured contact angles of droplets containing different concentration of DsRed proteins determine the interaction as hydrophilic one, however with larger contact angles for larger DsRed concentrations. The DsRed protein behavior is not pH-dependent with respect of the contact angle measurements, in agreement with previously reported studies.

Assessing bio-available silver released from silver nanoparticles embedded in silica layers using the green algae Chlamydomonas reinhardtii as bio-sensors.

Silver nanoparticles (AgNPs) because of their strong antibacterial activity are widely used in health-care sector and industrial applications. Their huge surface-volume ratio enhances the silver release compared to the bulk material, leading to an increased toxicity for microorganisms sensitive to this element. This work presents an assessment of the toxic effect on algal photosynthesis due to small (size <20nm) AgNPs embedded in silica layers. Two physical approaches were originally used to elaborate the nanocomposite structures: (i) low energy ion beam synthesis and (ii) combined silver sputtering and plasma polymerization. These techniques allow elaboration of a single layer of AgNPs embedded in silica films at defined nanometer distances (from 0 to 7nm) beneath the free surface. The structural and optical properties of the nanostructures were studied by transmission electron microscopy and optical reflectance. The silver release from the nanostructures after 20h of immersion in buffered water was measured by inductively coupled plasma mass spectrometry and ranges between 0.02 and 0.49µM. The short-term toxicity of Ag to photosynthesis of Chlamydomonas reinhardtii was assessed by fluorometry. The obtained results show that embedding AgNPs reduces the interactions with the buffered water free media, protecting the AgNPs from fast oxidation. The release of bio-available silver (impacting on the algal photosynthesis) is controlled by the depth at which AgNPs are located for a given host matrix. This provides a procedure to tailor the toxicity of nanocomposites containing AgNPs.

Enhancing carrier generation in TiO2 by a synergistic effect between plasmon resonance in Ag nanoparticles and optical interference.

Silver nanoparticles have been embedded at a few nanometer distance from the free surface of titania/silica multilayers using low energy ion beam synthesis. Transmission electron microscopy shows the presence of 3 nm-sized crystalline particles. Reflectance spectroscopy on these composite substrates shows an increase of the light capture efficiency in the visible range. This behaviour is interpreted as a synergistic effect between plasmon polariton resonance and Fabry-Perot interferences. Plasmon-resonant Raman spectroscopy is deeply used to analyze, on one hand confinement of vibrations and electronic excitations in Ag NPs, and on the other hand coupling of polar TiO2 phonons with injected photo-generated carriers. It is shown how these new Ag/TiO2 nanocomposite films appear as very promising to enhance the efficiency and enlarge the spectral sensitivity of plasmo-electronics devices.

Correction: Enhancing carrier generation in TiO2 by a synergistic effect between plasmon resonance in Ag nanoparticles and optical interference.

Correction for 'Enhancing carrier generation in TiO2 by a synergistic effect between plasmon resonance in Ag nanoparticles and optical interference' by Giuseppe Cacciato et al., Nanoscale, 2015, 7, 13468-13476.

Three dimensional design of silver nanoparticle assemblies embedded in dielectrics for Raman spectroscopy enhancement and dark-field imaging.

A strategy to design and fabricate hybrid metallic-dielectric substrates for optical spectroscopy and imaging is proposed. Different architectures consisting of three-dimensional patterns of metallic nanoparticles embedded in dielectric layers are conceived to simultaneously exploit the optical interference phenomenon in stratified media and localized surface plasmon resonances on metal nanoparticles. These structures are based on a simultaneous control of opto-electronic properties at three scales (3S) (~2/20/200 nm) and along three directions (3D). By ultralow energy ion implantation through a microfabricated stencil we precisely control the size, density, and location of silver nanoparticles embedded in silica/silicon thin films. Elastic (Rayleigh) and inelastic (Raman) scattering imaging assisted by simulations were used to analyze the optical response of these "3S-3D" patterned layers. The reflectance contrast is strongly enhanced when resonance conditions between the stationary electromagnetic field in the dielectric matrix and the localized plasmon resonance in the silver nanoparticles are realized. The potential of these 3S-3D metal-dielectric structures as surface-enhanced Raman scattering substrates is demonstrated. These novel kinds of plasmonic-photonic architectures are reproducible and stable; they preserve flat and chemically uniform surfaces, offering opportunities for the development of efficient and reusable substrates for optical spectroscopy and imaging enhancement.

Effect of ion implantation energy for the synthesis of Ge nanocrystals in SiN films with HfO2/SiO2 stack tunnel dielectrics for memory application.

Ge nanocrystals (Ge-NCs) embedded in SiN dielectrics with HfO2/SiO2 stack tunnel dielectrics were synthesized by utilizing low-energy (≤5 keV) ion implantation method followed by conventional thermal annealing at 800°C, the key variable being Ge+ ion implantation energy. Two different energies (3 and 5 keV) have been chosen for the evolution of Ge-NCs, which have been found to possess significant changes in structural and chemical properties of the Ge+-implanted dielectric films, and well reflected in the charge storage properties of the Al/SiN/Ge-NC + SiN/HfO2/SiO2/Si metal-insulator-semiconductor (MIS) memory structures. No Ge-NC was detected with a lower implantation energy of 3 keV at a dose of 1.5 × 1016 cm-2, whereas a well-defined 2D-array of nearly spherical and well-separated Ge-NCs within the SiN matrix was observed for the higher-energy-implanted (5 keV) sample for the same implanted dose. The MIS memory structures implanted with 5 keV exhibits better charge storage and retention characteristics compared to the low-energy-implanted sample, indicating that the charge storage is predominantly in Ge-NCs in the memory capacitor. A significant memory window of 3.95 V has been observed under the low operating voltage of ± 6 V with good retention properties, indicating the feasibility of these stack structures for low operating voltage, non-volatile memory devices.

Stabilization of metastable phases in spatially restricted fields: the case of the Fe2O3 polymorphs.

In this work we show how the confinement of particles in a silica matrix with pores, acting as nano-vessels, plays an important role in the formation of pure E-Fe2O3 nanoparticles and their thermal stability. In particular, a HRTEM study of a series of Fe2O3-SiO2 xerogels annealed at different temperatures reveals that, at low temperatures, gamma-Fe2O3 nanoparticles are formed and only transform to F-Fe2O3 after subsequent annealing at higher temperatures. These data are complemented by measurements of the SiO2 matrix porosity as well as with calorimetric and structural analysis of the nanoparticles after matrix removal. The gathered data indicate that the SiO2 matrix acts as a barrier, hindering thermal diffusion and particle growth even at the high temperatures where the formation of epsilon-Fe2O3 appears to be favoured, thereby preventing its transformation to alpha-Fe2O3.