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Amyloid fibrils are a large class of self-assembled protein aggregates that are formed from unstructured peptides and unfolded proteins. The fibrils are characterized by a universal β-sheet core stabilized by hydrogen bonds, but the molecular structure of the peptide subunits exposed on the fibril surface is variable. Here we show that multimodal spectroscopy using a range of bulk- and surface-sensitive techniques provides a powerful way to dissect variations in the molecular structure of polymorphic amyloid fibrils. As a model system, we use fibrils formed by the milk protein β-lactoglobulin, whose morphology can be tuned by varying the protein concentration during formation. We investigate the differences in the molecular structure and composition between long, straight fibrils versus short, wormlike fibrils. We show using mass spectrometry that the peptide composition of the two fibril types is similar. The overall molecular structure of the fibrils probed with various bulk-sensitive spectroscopic techniques shows a dominant contribution of the β-sheet core but no difference in structure between straight and wormlike fibrils. However, when probing specifically the surface of the fibrils with nanometer resolution using tip-enhanced Raman spectroscopy (TERS), we find that both fibril types exhibit a heterogeneous surface structure with mainly unordered or α-helical structures and that the surface of long, straight fibrils contains markedly more β-sheet structure than the surface of short, wormlike fibrils. This finding is consistent with previous surface-specific vibrational sum-frequency generation (VSFG) spectroscopic results ( VandenAkker et al. J. Am. Chem. Soc. , 2011 , 133 , 18030 - 18033 , DOI: 10.1021/ja206513r ). In conclusion, only advanced vibrational spectroscopic techniques sensitive to surface structure such as TERS and VSFG are able to reveal the difference in structure that underlies the distinct morphology and rigidity of different amyloid fibril polymorphs that have been observed for a large range of food and disease-related proteins.

We study the phase behaviour of a binary mixture of colloidal hard spheres and freely jointed chains of beads using Monte Carlo simulations. Recently Panagiotopoulos and co-workers predicted [Nat. Commun. 5, 4472 (2014)] that the hexagonal close packed (HCP) structure of hard spheres can be stabilized in such a mixture due to the interplay between polymer and the void structure in the crystal phase. Their predictions were based on estimates of the free-energy penalty for adding a single hard polymer chain in the HCP and the competing face centered cubic (FCC) phase. Here we calculate the phase diagram using free-energy calculations of the full binary mixture and find a broad fluid-solid coexistence region and a metastable gas-liquid coexistence region. For the colloid-monomer size ratio considered in this work, we find that the HCP phase is only stable in a small window at relatively high polymer reservoir packing fractions, where the coexisting HCP phase is nearly close packed. Additionally we investigate the structure and dynamic behaviour of these mixtures.

Particles adsorbed at a fluid-fluid interface induce capillary deformations that determine their orientations and generate mutual capillary interactions which drive them to assemble into 2D ordered structures. We numerically calculate, by energy minimization, the capillary deformations induced by adsorbed cubes for various Young's contact angles. First, we show that capillarity is crucial not only for quantitative, but also for qualitative predictions of equilibrium configurations of a single cube. For a Young's contact angle close to 90°, we show that a single-adsorbed cube generates a hexapolar interface deformation with three rises and three depressions. Thanks to the threefold symmetry of this hexapole, strongly directional capillary interactions drive the cubes to self-assemble into hexagonal or graphenelike honeycomb lattices. By a simple free-energy model, we predict a density-temperature phase diagram in which both the honeycomb and hexagonal lattice phases are present as stable states.

We introduce the pyunicorn (Pythonic unified complex network and recurrence analysis toolbox) open source software package for applying and combining modern methods of data analysis and modeling from complex network theory and nonlinear time series analysis. pyunicorn is a fully object-oriented and easily parallelizable package written in the language Python. It allows for the construction of functional networks such as climate networks in climatology or functional brain networks in neuroscience representing the structure of statistical interrelationships in large data sets of time series and, subsequently, investigating this structure using advanced methods of complex network theory such as measures and models for spatial networks, networks of interacting networks, node-weighted statistics, or network surrogates. Additionally, pyunicorn provides insights into the nonlinear dynamics of complex systems as recorded in uni- and multivariate time series from a non-traditional perspective by means of recurrence quantification analysis, recurrence networks, visibility graphs, and construction of surrogate time series. The range of possible applications of the library is outlined, drawing on several examples mainly from the field of climatology.

Type 2 diabetes mellitus is characterized by the pathological deposition of fibrillized protein, known as amyloids. It is thought that oligomers and/or amyloid fibrils formed from human islet amyloid polypeptide (hIAPP or amylin) cause cell death by membrane damage. The molecular structure of hIAPP amyloid fibrils is dominated by β-sheet structure, as probed with conventional infrared and Raman vibrational spectroscopy. However, with these techniques it is not possible to distinguish between the core and the surface structure of the fibrils. Since the fibril surface crucially affects amyloid toxicity, it is essential to know its structure. Here the surface molecular structure and amino acid residue composition of hIAPP fibrils are specifically probed with nanoscale resolution using tip-enhanced Raman spectroscopy (TERS). The fibril surface mainly contains unordered or α-helical structures, in contrast to the β-sheet-rich core. This experimentally validates recent models of hIAPP amyloids based on NMR measurements. Spatial mapping of the surface structure reveals a highly heterogeneous surface structure. Finally, TERS can probe fibrils formed on a lipid interface, which is more representative of amyloids in vivo., (© 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.)

We examine the effect of external electric fields on the behavior of colloidal silica rods. We find that the electric fields can be used to induce para-nematic and para-smectic phases, and to reduce the number of defects in smectic phases. At high field strengths, a new crystal structure was observed that consisted of strings of rods ordered in a hexagonal pattern in which neighboring rods were shifted along their length. We also present a simple model to describe this system, which we used in computer simulations to calculate the phase diagram for rods of L/D = 6, with L the end-to-end length of the rods and D the diameter of the rods. Our theoretical predictions for the phase behavior agree well with the experimental observations.

Correlative fluorescence and electron microscopy has become an indispensible tool for research in cell biology. The integrated Laser and Electron Microscope (iLEM) combines a Fluorescence Microscope (FM) and a Transmission Electron Microscope (TEM) within one set-up. This unique imaging tool allows for rapid identification of a region of interest with the FM, and subsequent high resolution TEM imaging of this area. Sample preparation is one of the major challenges in correlative microscopy of a single specimen; it needs to be apt for both FM and TEM imaging. For iLEM, the performance of the fluorescent probe should not be impaired by the vacuum of the TEM. In this technical note, we have compared the fluorescence intensity of six fluorescent probes in a dry, oxygen free environment relative to their performance in water. We demonstrate that the intensity of some fluorophores is strongly influenced by its surroundings, which should be taken into account in the design of the experiment. Furthermore, a freeze-substitution and Lowicryl resin embedding protocol is described that yields excellent membrane contrast in the TEM but prevents quenching of the fluorescent immuno-labeling. The embedding protocol results in a single specimen preparation procedure that performs well in both FM and TEM. Such procedures are not only essential for the iLEM, but also of great value to other correlative microscopy approaches., (Copyright © 2012 Elsevier Inc. All rights reserved.)

Immuno-transmission electron microscopy (TEM) is the technique of choice for high-resolution localization of proteins in fixed specimen. Here we introduce 2 novel methods for the fixation of sections from cryo-immobilized samples that result in excellent ultrastructural preservation. These high-speed fixation techniques, both called VIS2FIX, allow for a reduction in sample preparation time from at least 1 week to only 8 h. The methods were validated in immuno-TEM experiments on THP-1 monocytes, human umbilical vein endothelial cells (HUVECs) and Madin-Darby canine kidney (MDCK-II) cells. The fixation and retention of neutral lipids is demonstrated, offering unique prospects for the application of immuno-TEM in the lipidomics field. Furthermore, the VIS2FIX methods were successfully employed in correlative fluorescence and electron microscopy., (© 2011 John Wiley & Sons A/S.)

Titania is an important material in modern materials science, chemistry, and physics because of its special catalytic, electric, and optical properties. Here, we describe a novel method to synthesize colloidal particles with a crystalline titania, anatase core and an amorphous titania-shell structure. We demonstrate seeded growth of titania onto titania particles with accurate particle size tunability. The monodispersity is improved to such an extent so that colloidal crystallization of the grown microspheres becomes feasible. Furthermore, seeded growth provides separate manipulation of the core and shell. We tuned the refractive index of the amorphous shell between 1.55 and 2.3. In addition, the particles show luminescence when trace amounts of aminopropyl-triethoxysilane are incorporated into the titania matrix and are calcined at 450 °C. Our novel colloids may be useful for optical materials and technologies such as photonic crystals and optical trapping.

We demonstrate the assembly of colloidal particles with the shape of diatomic molecules ("dumbbells") into crystals that we study with confocal microscopy. The literature on the preparation of nonspherical colloidal particles has grown steadily. Assembly of these particles into regular three-dimensional crystalline lattices, however, is rarely, if ever, achieved and has not yet been studied quantitatively in 3D real space. We find that, by application of an electric field, such particles assemble quite readily. By varying the particle aspect ratio, range of interactions, and electric field strength, we find several different crystal structures of which three have never before been observed. Moreover, the electric field can be used to switch between different structures and manipulate/switch the photonic properties. Moreover, our work sheds light on fundamental questions related to the self-assembly of nonspherical particles.

We describe a general one-pot method for coating colloidal particles with amorphous titania. Various colloidal particles such as silica particles, large silver colloids, gibbsite platelets, and polystyrene spheres were successfully coated with a titania shell. Although there are several ways of coating different particles with titania in the literature, each of these methods is applicable to only one type of material. The present method is especially useful for giving the opportunity to cover many types of colloidal particles with titania and forgoes the use of a coupling agent or a precoating step. We can produce particles with a smooth titania layer of tunable thickness. The monodispersity, which improves during particle growth, and the high refractive index of titania make these particles potential candidates for photonic crystal applications. We also describe various ways of fabricating hollow titania shells, which have been intensively studied in the literature for their applications in electronics, catalysis, separations, and diagnostics. Note that our method initially produces amorphous shells on the particles, but these can be easily turned into crystalline titania by a calcination step. We also find that the growth of titania is a surface-reaction-limited process.

The elastic properties of micrometer-sized hollow colloidal particles obtained by emulsion templating are probed by nanoindentation measurements in which point forces are applied to solvent-filled particles supported on a flat substrate. We show that the shells respond linearly up to forces of 7-21 nN, where the indentation becomes of the order of the shell thickness (20-40 nm). In the linear region, the particle deformation is reversible. The measured Young's modulus (approximately 200 MPa) is comparable to values for stiff rubbers or soft polymers. At larger applied force, we observe a crossover into a nonlinear regime, where the shells assume a buckled shape. Here, the force increases approximately as the square root of the indentation, in agreement with the theory of elasticity of thin shells. We also observe permanent deformation of the shells after probing them repetitively beyond the linear regime. Finally, the measured elastic properties of the shells nicely explain their spontaneous buckling in solution and due to drying.

We provide a dynamical systems framework to understand the Atlantic Multidecadal Oscillation and show that this framework is in many ways similar to that of the El Niño/Southern Oscillation. A so-called minimal primitive equation model is used to represent the Atlantic Ocean circulation. Within this minimal model, we identify a normal mode of multidecadal variability that can destabilize the background climate state through a Hopf bifurcation. Next, we argue that noise is setting the amplitude of the sea surface temperature variability associated with this normal mode. The results provide support that a stochastic Hopf bifurcation is involved in the multidecadal variability as observed in the North Atlantic.

Surfactant-stabilized emulsion droplets were used as templates for the synthesis of hollow colloidal particles. Monodisperse silicone oil droplets were prepared by hydrolysis and polymerization of dimethyldiethoxysiloxane monomer, in the presence of surfactant: sodium dodecyl sulphate (SDS, anionic) or Triton X-100 (non-ionic). A sharp decrease in the average droplet radius with increasing surfactant concentration was found, with a linear dependence of the droplet radius on the logarithm of the surfactant concentration. The surfactant-stabilized oil droplets were then encapsulated with a solid shell using tetraethoxysilane, and hollow particles were obtained by exchange of the liquid core. The size and polydispersity of the oil droplets and the thickness of the shell were determined using static light scattering, and hollow particles were characterized by electron microscopy. Details on the composition of the shell material were obtained from energy-dispersive X-ray analysis. In the case of sodium dodecyl sulphate, the resulting shells were relatively thin and rough, while when Triton X-100 was used, smooth shells were obtained which could be varied in thickness from very thick ( approximately 150 nm) to very thin shells ( approximately 17 nm). Finally, hexane droplets were encapsulated using the same procedure, showing that our method can in principle be extended to a wide range of emulsions.

The appearance of objects is determined by their surface reflectance and roughness and by the light field. Conversely, human observers might derive properties of the light field from the appearance of objects. The inverse problem has no unique solution, so perceptual interactions between reflectance, roughness, and lightfield are to be expected. In two separate experiments, we tested whether observers are able to match the illumination of spheres under collimated illumination only (matching of illumination direction) and under more or less diffuse illumination (matching of illumination direction and directedness of the beam). We found that observers are quite able to match collimated illumination directions of two rendered Lambertian spheres. Matching of the collimated beam directions of a Lambertian sphere and that of a real object with arbitrary reflectance and roughness properties resulted in similar results for the azimuthal angle, but in higher variance for the polar angle. Translucent objects and a tennis ball were found to be systematic outliers. If the directedness of the beam was also varied, the direction settings showed larger variance for more diffuse illumination. The directedness settings showed an overall quite large variance and, interestingly, interacted with the polar angle settings. We discuss possible photometrical mechanisms behind these effects.

On 27 December 2004, a giant gamma flare from the Soft Gamma-Ray Repeater 1806-20 saturated many satellite gamma-ray detectors, being the brightest transient event ever observed in the Galaxy. AMANDA-II was used to search for down-going muons indicative of high-energy gammas and/or neutrinos from this object. The data revealed no significant signal, so upper limits (at 90% C.L.) on the normalization constant were set: 0.05(0.5) TeV-1 m;{-2} s;{-1} for gamma=-1.47 (-2) in the gamma flux and 0.4(6.1) TeV-1 m;{-2} s;{-1} for gamma=-1.47 (-2) in the high-energy neutrino flux.

The use of nonspatial attentional mechanisms in search tasks was investigated by presenting observers with stimuli that contained 4-12 elements located on a circle around the fixation point. The elements differed in one of six nonspatial 'dimensions', namely orientation, contrast, scale, number of cycles, 'shape', and place in the alphabet. The target element of the search task differed from trial to trial but was always presented to the observer as a nonspatial, visual cue. This cue was displayed either before the stimulus (precue) or after the stimulus (postcue). Whereas a precue creates optimal conditions for the use of nonspatial attentional mechanisms, a postcue precludes benefits from their use. The fact that performance was better in the case of precued stimuli than in the case of postcued stimuli indicates that observers employed nonspatial attentional mechanisms. In the final analysis, however, the effect of nonspatial attention reduces to spatial attention in combination with limited storage capacity.