A new motif in the formation of peptide nanotubes: the crystallographic signature

Terminally protected acyclic tripeptides Boc-Tyr(1)-Val(2)-Tyr(3)-OMe 1 and Boc-Tyr(1)-lle(2)-Tyr(3)-OMe 2 self-assemble into nanotubes in crystals through various noncovalent interactions with an average internal diameter of 5 Angstrom (0.5 nm), and the tubular ensemble is developed through the hydrogen-bonded side chains of tyrosine residues. The inside of the hollow nanotubular structures is hydrophilic; however, no solvent molecules have been crystallographically detected.

Communicating neurons: a connectionist spiking neuron implementation of stochastic diffusion search

An information processing paradigm in the brain is proposed, instantiated in an artificial neural network using biologically motivated temporal encoding. The network will locate within the external world stimulus, the target memory, defined by a specific pattern of micro-features. The proposed network is robust and efficient. Akin in operation to the swarm intelligence paradigm, stochastic diffusion search, it will find the best-fit to the memory with linear time complexity. information multiplexing enables neurons to process knowledge as 'tokens' rather than 'types'. The network illustrates possible emergence of cognitive processing from low level interactions such as memory retrieval based on partial matching. (C) 2007 Elsevier B.V. All rights reserved.

Extensive microsatellite diversity in the human malaria parasite Plasmodium vivax

The population structure of Plasmodium vivax remains elusive. The markers of choice for large-scale population genetic studies of eukaryotes, short tandem repeats known as microsatellites, have been recently reported to be less polymorphic in R vivax. Here we investigate the microsatellite diversity and geographic structure in P vivax, at both local and global levels, using 14 new markers consisting of tri- or tetranucleotide repeats. The local-level analysis, which involved 50 field isolates from Sri Lanka, revealed unexpectedly high diversity (average virtual heterozygosity [H-E], 0.807) and significant multilocus linkage disequilibrium in this region of low malaria endemicity. Multiple-clone infections occurred in 60% of isolates sampled in 2005. The global-level analysis of field isolates or monkey-adapted strains identified 150 unique haplotypes among 164 parasites from four continents. Individual P. vivax isolates could not be unambiguously assigned to geographic populations. For example, we found relatively low divergence among parasites from Central America, Africa, Southeast Asia and Oceania, but substantial differentiation between parasites from the same continent (South Asia and Southeast Asia) or even from the same country (Brazil). Parasite relapses, which may extend the duration of P. vivax carriage in humans, are suggested to facilitate the spread of strains across continents, breaking down any pre-existing geographic structure. (C) 2008 Elsevier B.V. All rights reserved.

Microengineering of supramolecular soft materials by design of the crystalline fiber networks

Crystalline spherulitic fiber networks are commonly observed in polymeric and supramolecular functional materials. The elasticity of materials with this type of network is low if interactions between the individual spherulites are weak (mutually exclusive). Improving the elasticity of these materials is necessary because of their important applications in many fields. In this work, the engineering of the microstructures and rheological properties of this type of material is carried out. A small molecule organogel formed by the gelation of N-lauroyl-L-glutamic acid di-n-butylamide (GP-1) in propylene glycol (PG) is used as an example. The elasticity of this material is improved by controlling the thermodynamic driving force, the supersaturation of the gelator, and by using a selected copolymer additive to manipulate the primary nucleation of GP-1. Because of the weak interactions between the GP-1 spherulites, with the same fiber mass, the elasticity of GP-1/PG gel is less than half of those of the other two gels formed by GP-1 and 2-hydroxystearlic acid in solvent benzyl benzoate (BB), which are supported by interconnecting spherulitic fiber networks. This work develops a robust approach to the engineering of supramolecular functional materials especially those with mutually exclusive spherulite fiber networks.

A probabilistic approach to the anxious home for activity monitoring

This paper describes an approach to representing normal activities in a smart house based on the concept of anxiety. Anxiety is computed as a function of time and is kept low by interactions of an occupant with the various devices in a house. Abnormality is indicated by a lack of activity or the wrong activity which will cause anxiety to rise ultimately raising an alarm, querying the occupant and/or alerting a carer in real-time. Anxiety is formulated using probabilistic models that describe how people interact with devices in combinations. These models can be learnt interactively as the smart house acts pessimistically enquiring of the occupant if what they are doing is normal. Results are presented for a number of kitchen scenarios and for different formulations of anxiety.

Eye color as an indicator of social rank in the fish Nile tilapia

We investigated the association of eye color with the dominant-subordinate relationship in the fish Nile tilapia, Oreochromis niloticus. Eye color pattern was also examined in relation to the intensity of attacks. We paired 20 size-matched fish (intruder: 73.69 ± 11.49 g; resident: 75.42 ± 8.83 g) and evaluated eye color and fights. These fish were isolated in individual aquaria for 10 days and then their eye color was measured 5 min before pairing (basal values). Twenty minutes after pairing, eye color and fights were quantified for 10 min. Clear establishment of social hierarchy was observed in 7 of 10 pairs of fish. Number of attacks ranged from 1 to 168 among pairs. The quartile was calculated for these data and the pairs were then divided into two classes: low-attack (1 to 111 attacks - 2 lower quartiles) or high-attack (112 to 168 attacks - 2 higher quartiles). Dominance decreased the eye-darkening patterns of the fish after pairing, while subordinance increased darkening compared to dominance. Subordinate fish in low-attack confrontations presented a darker eye compared to dominant fish and to the basal condition. We also observed a paler eye pattern in dominants that shared low-attack interactions after pairing compared to the subordinates and within the group. However, we found no differences in the darkening pattern between dominants and subordinates from the high-attack groups. We conclude that eye color is associated with social rank in this species. Moreover, the association between eye color and social rank in the low-attack pairs may function to reduce aggression.

Short-distance part of the interaction of D mesons and nucleons

The short-distance part of the low energy interaction of D-mesons and nucleons is investigated in the context of a quark model. The quark model is based on Coulomb gauge QCD. The model contains a confining Coulomb potential and a transverse hyperfine interaction consistent with a finite gluon propagator in the infrared. The basic mechanism for the short-distance interaction between the D-mesons and nucleons is quark interchange. Using Resonating GroupMethod techniques an effective potential for the interaction between nucleons and D mesons can be obtained and used in a Lippmann-Schwinger equation to obtain differential cross-sections and phase shifts.

DESIGN AND DEVELOPMENT OF BODIPY-BASED FLUORESCENT PROBES FOR SENSING AND IMAGING OF CYANIDE, Zn (II) IONS, LYSOSOMAL pH AND CANCER CELLS

BODIPY (4,4-Difluoro-3a,4a-diaza-s-indacene) dyes have gained lots of attention in application of fluorescence sensing and imaging in recent years because they possess many distinctive and desirable properties such as high extinction coefficient, narrow absorption and emission bands, high quantum yield and low photobleaching effect. However, most of BODIPY-based fluorescent probes have very poor solubilities in aqueous solution, emit less than 650 nm fluorescence that can cause cell and tissue photodamages compared with bio-desirable near infrared (650-900 nm) light. These undesirable properties extremely limit the applications of BODIPY-based fluorescent probes in sensing and imaging applications. In order to overcome these drawbacks, we have developed a very effective strategy to prepare a series of neutral highly water- soluble BODIPY dyes by enhancing the water solubilities of BODIPY dyes via incorporation of tri(ethylene glycol)methyl ether (TEG) and branched oligo(ethylene glycol)methyl ether (BEG) residues onto BODIPY dyes at 1,7-, 2,6-, 3,5-, 4- and meso- positions. We also have effectively tuned absorptions and emissions of BOIDPY dyes to red, deep red and near infrared regions via significant extension of π-conjugation of BODIPY dyes by condensation reactions of aromatic aldehydes with 2,6-diformyl BODIPY dyes at 1,3,5,7-positions. Based on the foundation that we built for enhancing water solubility and tuning wavelength, we have designed and developed a series of water-soluble, BODIPY-based fluorescent probes for sensitive and selective sensing and imaging of cyanide, Zn (II) ions, lysosomal pH and cancer cells. We have developed three BODIPY-based fluorescent probes for sensing of cyanide ions by incorporating indolium moieties onto the 6-position of TEG- or BEG-modified BOIDPY dyes. Two of them are highly water-soluble. These fluorescent probes showed selective and fast ratiometric fluorescent responses to cyanide ions with a dramatic fluorescence color change from red to green accompanying a significant increase in fluorescent intensity. The detection limit was measured as 0.5 mM of cyanide ions. We also have prepared three highly water-soluble fluorescent probes for sensing of Zn (II) ions by introducing dipicoylamine (DPA, Zn ion chelator) onto 2- and/or 6-positions of BEG-modified BODIPY dyes. These probes showed selective and sensitive responses to Zn (II) ion in the range from 0.5 mM to 24 mM in aqueous solution at pH 7.0. Particularly, one of the probes displayed ratiometric responses to Zn (II) ions with fluorescence quenching at 661 nm and fluorescence enhancement at 521 nm. This probe has been successfully applied to the detection of intracellular Zn (II) ions inside the living cells. Then, we have further developed three acidotropic, near infrared emissive BODIPY- based fluorescent probes for detection of lysosomal pH by incorporating piperazine moiety at 3,5-positions of TEG- or BEG-modified BODIPY dyes as parts of conjugation. The probes have low auto-fluorescence at physiological neutral condition while their fluorescence intensities will significant increase at 715 nm when pH shift to acidic condition. These three probes have been successfully applied to the in vitro imaging of lysosomes inside two types of living cells. At the end, we have synthesized one water- soluble, near infrared emissive cancer cell targetable BODIPY-based fluorescent polymer bearing cancer homing peptide (cRGD) residues for cancer cell imaging applications. This polymer exhibited excellent water-solubility, near infrared emission (712 nm), good biocompatibility. It also showed low nonspecific interactions to normal endothelial cells and can effectively detect breast tumor cells.

Differential diagnosis of the honey bee trypanosomatids Crithidia mellificae and Lotmaria passim

Trypanosomatids infecting honey bees have been poorly studied with molecular methods until recently. After the description of Crithidia mellificae (Langridge and McGhee, 1967) it took about forty years until molecular data for honey bee trypanosomatids became available and were used to identify and describe a new trypanosomatid species from honey bees, Lotmaria passim (Evans and Schwarz, 2014). However, an easy method to distinguish them without sequencing is not yet available. Research on the related bumble bee parasites Crithidia bombi and Crithidia expoeki revealed a fragment length polymorphism in the internal transcribed spacer 1 (ITS1), which enabled species discrimination. In search of fragment length polymorphisms for differential diagnostics in honey bee trypanosomatids, we studied honey bee trypanosomatid cell cultures of C. mellificae and L. passim. This research resulted in the identification of fragment length polymorphisms in ITS1 and ITS1-2 markers, which enabled us to develop a diagnostic method to differentiate both honey bee trypanosomatid species without the need for sequencing. However, the amplification success of the ITS1 marker depends probably on the trypanosomatid infection level. Further investigation confirmed that L. passim is the dominant species in Belgium, Japan and Switzerland. We found C. mellificae only rarely in Belgian honey bee samples, but not in honey bee samples from other countries. C. mellificae was also detected in mason bees (Osmia bicornis and Osmia cornuta) besides in honey bees. Further, the characterization and comparison of additional markers from L. passim strain SF (published as C. mellificae strain SF) and a Belgian honey bee sample revealed very low divergence in the 18S rRNA, ITS1-2, 28S rRNA and cytochrome b sequences. Nevertheless, a variable stretch was observed in the gp63 virulence factor.

Seleção de jabuticabeiras juvenis considerando o vigor, o potencial antioxidante e a tolerância a geadas

The jabuticaba tree has great potential for commercial exploitation. However, its is very little used. This fact shows to be necessary to do studies that allow understand their growth behavior during the year and, if it is tolerant to frost. So that it can establish management strategies for cultivation in orchard. Other point, it is the fact that the long juvenile period of jabuticaba tree limits its use. However, many species have compound leaves that characterize them as functional compounds, what to posible its commercialization. If the leaf jabuticaba tree also present such nutraceutical compounds, this it may become an alternative source of income until the plant to start its yield. The objectives of this study were to analyze the growth behavior, the occurrence of flowering and fruit set, and the frost tolerance of jabuticaba tree genotypes present in the collection of Native Fruit from UTFPR – Câmpus Dois Vizinhos. Associated growth analysis was made evaluation of genetic divergence among these genotypes, checking the adaptive behavior in orchard condition through adaptability and stability analysis based on growth measures to stem and shoots; estimating the repeatability coefficient of stem length of characters and primary shoots, and determine the minimum number of evaluations able to provide certain levels of prediction of the actual value of these individuals. Also determined the genetic divergence among genotypes as the leaves of antioxidant activity by DPPH and ABTS methods, as well as the determination of total phenolics. The genotypes studied were put in orchard in 2009. The growth response in the three cycles was variable between months and genotypes, what it can be difficult the practices in the orchard if it do not use clones. Genotypes 'Silvestre' and 'Açú' showed greater width and leaf area compared with other genotypes, but such behavior is not favored for increased stem growth and primary shoots. Foliar increments in most genotypes occurred in the fall for leaf width, spring for length and leaf area, despite the winter also arise with genotypes, it showed superiority to width and leaf area. Most jabuticabas trees were juvenile stage with only four starting at its transition between the vegetative and reproductive phase. Tolerance to frost was observed in 26 families jabuticabeira of the 29 present in the collection. The diversity among the genotypes was to change with the time, already in each cycle, there was the formation of different groups by the methods used. The methods tested for adaptability and stability of the jabuticaba tree growth behavior did not show the same pattern in the results. The number of measurements needed to predict the actual value of genotypes based on variables evaluated was approximately one to the stem length and four for the shoots based on the method of main components of covariance with 90% probability. he antioxidant activity of the extracts of leaves of jabuticaba tree genotypes were demonstrated high when compared to other species by methods DPPH and ABTS, as well as the amount of phenolic compounds. Genotype 'Silvestre' and 'IAPAR' showed the highest antioxidant activity in the leaves. However, the genetic divergence among genotypes jabuticaba tree from collection of Native Fruit trees at UTFPR - Câmpus Dois Vizinhos for antioxidant activity leaves showed that they have great homogeneity among them and the low divergence. However, it is recommended as possible hybridization the use as parents, José 4, IAPAR 4 and Fernando Xavier genotypes.

ACOUSTO-OPTIC IMAGING IN DIFFUSE MEDIA USING PULSED ULTRASOUND AND THE PHOTOREFRACTIVE EFFECT

Acousto-optic imaging (AOI) in optically diffuse media is a hybrid imaging modality in which a focused ultrasound beam is used to locally phase modulate light inside of turbid media. The modulated optical field carries with it information about the optical properties in the region where the light and sound interact. The motivation for the development of AOI systems is to measure optical properties at large depths within biological tissue with high spatial resolution. A photorefractive crystal (PRC) based interferometry system is developed for the detection of phase modulated light in AOI applications. Two-wave mixing in the PRC creates a reference beam that is wavefront matched to the modulated optical field collected from the specimen. The phase modulation is converted to an intensity modulation at the optical detector when these two fields interfere. The interferometer has a high optical etendue, making it well suited for AOI where the scattered light levels are typically low. A theoretical model for the detection of acoustically induced phase modulation in turbid media using PRC based interferometry is detailed. An AOI system, using a single element focused ultrasound transducer to pump the AO interaction and the PRC based detection system, is fabricated and tested on tissue mimicking phantoms. It is found that the system has sufficient sensitivity to detect broadband AO signals generated using pulsed ultrasound, allowing for AOI at low time averaged ultrasound output levels. The spatial resolution of the AO imaging system is studied as a function of the ultrasound pulse parameters. A theoretical model of light propagation in turbid media is used to explore the dependence of the AO response on the experimental geometry, light collection aperture, and target optical properties. Finally, a multimodal imaging system combining pulsed AOI and conventional B- mode ultrasound imaging is developed. B-mode ultrasound and AO images of targets embedded in both highly diffuse phantoms and biological tissue ex vivo are obtained, and millimeter resolution is demonstrated in three dimensions. The AO images are intrinsically co-registered with the B-mode ultrasound images. The results suggest that AOI can be used to supplement conventional B-mode ultrasound imaging with optical information.

Anisotropic diffraction of stratified volume holographic grating in photorefractive media

We have studied the anisotropic diffraction properties of the stratified volume holographic gratings recorded in photorefractive media using the anisotropic coupled wave theory. It is shown that the diffraction efficiency of such system exhibit the uniform periodic Bragg selectivity properties. In addition the dependence of the stratified volume holographic optical elements (SVHOEs) diffraction properties on the buffer-layer thickness, grating-layer thickness, number of modulation layers, and total thickness of system are discussed in detail. (c) 2005 Elsevier GrnbH. All rights reserved.

One-dimensional incoherently coupled grey solitons in two-photon photorefractive media

We show that grey solitons, grey-grey soliton pairs, and multi-component grey solitons can be realized in two-photon photorefractive media. The results for soliton pairs and multi-component solitons are derived under the assumption that the carrier beams share the same polarization, wavelength, and are mutually incoherent.

Theory of optical dispersive shock waves in photorefractive media

The theory of optical dispersive shocks generated in the propagation of light beams through photorefractive media is developed. A full one-dimensional analytical theory based on the Whitham modulation approach is given for the simplest case of a sharp steplike initial discontinuity in a beam with one-dimensional striplike geometry. This approach is confirmed by numerical simulations, which are extended also to beams with cylindrical symmetry. The theory explains recent experiments where such dispersive shock waves have been observed.