Thomas Decomposition of Algebraic and Differential Systems

In this paper we consider disjoint decomposition of algebraic and non-linear partial differential systems of equations and inequations into so-called simple subsystems. We exploit Thomas decomposition ideas and develop them into a new algorithm. For algebraic systems simplicity means triangularity, squarefreeness and non-vanishing initials. For differential systems the algorithm provides not only algebraic simplicity but also involutivity. The algorithm has been implemented in Maple

Effects of Different Drying Methods on Extractable Phenolic Compounds from Turkey Berry (Solanum torvum) Leaves

In the Philippines, there is an abundance of plants rich in phenolic compounds such as Solanum torvum (turkey berry), a plant with antifungal, antibacterial, anticancer, antimicrobial, and antiviral properties; however, there is not much information on the extraction of its phenolics, especially on the best drying method that will give the highest yield. Drying reduces water which allows better extraction of the said phenolics, but different drying methods expose the phenolics to possible degradation. In this study, the effect of different drying methods, namely sun-drying, freeze-drying, and microwave-drying on the extraction of total phenolics from S. torvum leaves was investigated. The dried leaves were macerated to determine the best drying method that would give the highest content of phenolic compounds from S. torvum leaves. Sun-drying, the most energy-efficient method, resulted in the highest extraction yield of 2.14 ± 0.01 mg GAE/g d.w., which was significantly different from the yields of microwave-drying and freeze-drying. Freeze-drying resulted in the lowest yield of 1.02 ± 0.01 mg GAE/g d.w., while microwave-drying yielded 1.58 ± 0.03 mg GAE/g d.w. Due to the photosensitivity of the freeze-dried samples and the high temperature of microwave-drying, phenolic compounds have degraded resulting in lesser yields. Although microwave-drying yielded less than sun-drying, it is the most efficient drying method out of the three as it is more energy-efficient than freeze-drying and less time-consuming than the others

Care For Pastors: Learning From Clergy and Their Spouses

Pastors and their spouses face unique challenges because of the nature of pastoral work, and yet most manage these challenges successfully. Five studies are presented which help distinguish between intrapersonal, family, and community forms of care. Pastors rely heavily on intrapersonal forms of coping such as spiritual devotion, hobbies, exercise, and taking time away from work. The marriage relationship is also quite important for most clergy and spouses. Relationships outside the immediate family are not commonly identified as coping resources. Implications are discussed

Nestin in immature embryonic neurons affects axon growth cone morphology and Semaphorin3a sensitivity

Correct wiring in the neocortex requires that responses to an individual guidance cue vary among neurons in the same location, and within the same neuron over time. Nestin is an atypical intermediate filament expressed strongly in neural progenitors and is thus used widely as a progenitor marker. Here we show a subpopulation of embryonic cortical neurons that transiently express nestin in their axons. Nestin expression is thus not restricted to neural progenitors, but persists for 2–3 d at lower levels in newborn neurons. We found that nestin-expressing neurons have smaller growth cones, suggesting that nestin affects cytoskeletal dynamics. Nestin, unlike other intermediate filament subtypes, regulates cdk5 kinase by binding the cdk5 activator p35. Cdk5 activity is induced by the repulsive guidance cue Semaphorin3a (Sema3a), leading to axonal growth cone collapse in vitro. Therefore, we tested whether nestin-expressing neurons showed altered responses to Sema3a. We find that nestin-expressing newborn neurons are more sensitive to Sema3a in a roscovitine-sensitive manner, whereas nestin knockdown results in lowered sensitivity to Sema3a. We propose that nestin functions in immature neurons to modulate cdk5 downstream of the Sema3a response. Thus, the transient expression of nestin could allow temporal and/or spatial modulation of a neuron’s response to Sema3a, particularly during early axon guidance

On the computation of zone and double zone diagrams

Classical objects in computational geometry are defined by explicit relations. Several years ago the pioneering works of T. Asano, J. Matousek and T. Tokuyama introduced "implicit computational geometry", in which the geometric objects are defined by implicit relations involving sets. An important member in this family is called "a zone diagram". The implicit nature of zone diagrams implies, as already observed in the original works, that their computation is a challenging task. In a continuous setting this task has been addressed (briefly) only by these authors in the Euclidean plane with point sites. We discuss the possibility to compute zone diagrams in a wide class of spaces and also shed new light on their computation in the original setting. The class of spaces, which is introduced here, includes, in particular, Euclidean spheres and finite dimensional strictly convex normed spaces. Sites of a general form are allowed and it is shown that a generalization of the iterative method suggested by Asano, Matousek and Tokuyama converges to a double zone diagram, another implicit geometric object whose existence is known in general. Occasionally a zone diagram can be obtained from this procedure. The actual (approximate) computation of the iterations is based on a simple algorithm which enables the approximate computation of Voronoi diagrams in a general setting. Our analysis also yields a few byproducts of independent interest, such as certain topological properties of Voronoi cells (e.g., that in the considered setting their boundaries cannot be "fat").Comment: Very slight improvements (mainly correction of a few typos); add DOI; Ref [51] points to a freely available computer application which implements the algorithms; to appear in Discrete & Computational Geometry (available online

Exemplar-Based Human Action Recognition with Template Matching from a Stream of Motion Capture

Recent works on human action recognition have focused on representing and classifying articulated body motion. These methods require a detailed knowledge of the action composition both in the spatial and temporal domains, which is a difficult task, most notably under real-time conditions. As such, there has been a recent shift towards the exemplar paradigm as an efficient low-level and invariant modelling approach. Motivated by recent success, we believe a real-time solution to the problem of human action recognition can be achieved. In this work, we present an exemplar-based approach where only a single action sequence is used to model an action class. Notably, rotations for each pose are parameterised in Exponential Map form. Delegate exemplars are selected using k-means clustering, where the cluster criteria is selected automatically. For each cluster, a delegate is identified and denoted as the exemplar by means of a similarity function. The number of exemplars is adaptive based on the complexity of the action sequence. For recognition, Dynamic Time Warping and template matching is employed to compare the similarity between a streamed observation and the action model. Experimental results using motion capture demonstrate our approach is superior to current state-of-the-art, with the additional ability to handle large and varied action sequences

Rhesus TRIM5α disrupts the HIV-1 capsid at the inter-hexamer interfaces

TRIM proteins play important roles in the innate immune defense against retroviral infection, including human immunodeficiency virus type-1 (HIV-1). Rhesus macaque TRIM5α (TRIM5αrh) targets the HIV-1 capsid and blocks infection at an early post-entry stage, prior to reverse transcription. Studies have shown that binding of TRIM5α to the assembled capsid is essential for restriction and requires the coiled-coil and B30.2/SPRY domains, but the molecular mechanism of restriction is not fully understood. In this study, we investigated, by cryoEM combined with mutagenesis and chemical cross-linking, the direct interactions between HIV-1 capsid protein (CA) assemblies and purified TRIM5αrh containing coiled-coil and SPRY domains (CC-SPRYrh). Concentration-dependent binding of CC-SPRYrh to CA assemblies was observed, while under equivalent conditions the human protein did not bind. Importantly, CC-SPRYrh, but not its human counterpart, disrupted CA tubes in a non-random fashion, releasing fragments of protofilaments consisting of CA hexamers without dissociation into monomers. Furthermore, such structural destruction was prevented by inter-hexamer crosslinking using P207C/T216C mutant CA with disulfide bonds at the CTD-CTD trimer interface of capsid assemblies, but not by intra-hexamer crosslinking via A14C/E45C at the NTD-NTD interface. The same disruption effect by TRIM5αrh on the inter-hexamer interfaces also occurred with purified intact HIV-1 cores. These results provide insights concerning how TRIM5α disrupts the virion core and demonstrate that structural damage of the viral capsid by TRIM5α is likely one of the important components of the mechanism of TRIM5α-mediated HIV-1 restriction. © 2011 Zhao et al

Assisted evolution enables HIV-1 to overcome a high trim5α-imposed genetic barrier to rhesus macaque tropism

Diversification of antiretroviral factors during host evolution has erected formidable barriers to cross-species retrovirus transmission. This phenomenon likely protects humans from infection by many modern retroviruses, but it has also impaired the development of primate models of HIV-1 infection. Indeed, rhesus macaques are resistant to HIV-1, in part due to restriction imposed by the TRIM5α protein (rhTRIM5α). Initially, we attempted to derive rhTRIM5α-resistant HIV-1 strains using two strategies. First, HIV-1 was passaged in engineered human cells expressing rhTRIM5α. Second, a library of randomly mutagenized capsid protein (CA) sequences was screened for mutations that reduced rhTRIM5α sensitivity. Both approaches identified several individual mutations in CA that reduced rhTRIM5α sensitivity. However, neither approach yielded mutants that were fully resistant, perhaps because the locations of the mutations suggested that TRIM5α recognizes multiple determinants on the capsid surface. Moreover, even though additive effects of various CA mutations on HIV-1 resistance to rhTRIM5α were observed, combinations that gave full resistance were highly detrimental to fitness. Therefore, we employed an 'assisted evolution' approach in which individual CA mutations that reduced rhTRIM5α sensitivity without fitness penalties were randomly assorted in a library of viral clones containing synthetic CA sequences. Subsequent passage of the viral library in rhTRIM5α-expressing cells resulted in the selection of individual viral species that were fully fit and resistant to rhTRIM5α. These viruses encoded combinations of five mutations in CA that conferred complete or near complete resistance to the disruptive effects of rhTRIM5α on incoming viral cores, by abolishing recognition of the viral capsid. Importantly, HIV-1 variants encoding these CA substitutions and SIVmac239 Vif replicated efficiently in primary rhesus macaque lymphocytes. These findings demonstrate that rhTRIM5α is difficult to but not impossible to evade, and doing so should facilitate the development of primate models of HIV-1 infection