Variability of the honey bee mite Varroa destructor in Serbia, based on mtDNA analysis

Only two mitochondrial haplotypes (Korea and Japan) of Varroa destructor, the ectoparasitic honey bee mite, are known to be capable of infesting and successfully reproducing in Apis mellifera colonies worldwide. Varroa destructor (then called Varroa jacobsoni) was observed in Serbia for the first time in 1976. In order to obtain insight into the genetic variability of the mites parasitizing A. mellifera we analyzed 45 adult female mites sampled from nine localities dispersed throughout Serbia. Four fragments within cox1, atp6, cox3 and cytb mtDNA genes were sequenced. The Korea haplotype of V. destructor was found to be present at all localities, but also two new haplotypes (Serbia 1 and Peshter 1) were revealed, based on cox1 and cytb sequence variability. The simultaneous occurrence of Korea and Serbia 1 haplotypes was observed at five localities, whereas Peshter 1 haplotype was identifed at only one place.     

Hydrophilicity Matching – A Potential Prerequisite for the Formation of Protein-Protein Complexes in the Cell

A binding event between two proteins typically consists of a diffusional search of binding partners for one another, followed by a specific recognition of the compatible binding sites resulting in the formation of the complex. However, it is unclear how binding partners find each other in the context of the crowded, constantly fluctuating, and interaction-rich cellular environment. Here we examine the non-specific component of protein-protein interactions, which refers to those physicochemical properties of the binding partners that are independent of the exact details of their binding sites, but which can affect their localization or diffusional search for one another. We show that, for a large set of high-resolution experimental 3D structures of binary, transient protein complexes taken from the DOCKGROUND database, the binding partners display a surprising, statistically significant similarity in terms of their total hydration free energies normalized by a size-dependent variable. We hypothesize that colocalization of binding partners, even within individual cellular compartments such as the cytoplasm, may be influenced by their relative hydrophilicity, potentially in response to local hydrophilic gradients.     

An Application of the Shark Skin Denticle Geometry for Windbreak Fence Design and Fabrication

Windbreak fences in open and urban areas can be used to effectively reduce the wind velocity.In this paper we examine how the geometrical shape of the windbreak fence can optimally mitigate wind velocity.We propose an approach for windbreak fence design based on a bionic parametric model of the shark skin denticle geometry,which improves the reduction of the wind velocity around and behind the windbreak fences.The generative model was used to estimate improvements by variations in the parameters of the fence panel's geometrical shape,inspired by shark skin denticles.The results of the Computational Fluid Dynamics (CFD) analysis indicates that the fence surface inspired by shark skin performs much better than both flat and corrugated surfaces.Taking into account the complex geometry of the surface inspired by shark skin denticles,we propose a fabrication process using an expanded polystyrene foam (EPS) material,created using an industrial robot ann with a hot-wire tool.Creating EPS moulds for the shark skin denticle panels allows for a richer variety material to be used in the final design,leading both to higher efficiency and a more attractive design.     

Application of the Kinetic Triplets and Geometrical Characteristics of Thermal Analysis Curves in Identifying the Main Bioactive Compounds (BC) that Govern the Thermal and Thermo-Oxidative Degradation Mechanism of <Emphasis Type="Italic">Aronia melanocarpa</Emphasis> (Black Chokeberry)

Thermal and thermo-oxidative kinetics of Aronia melanocarpa fresh samples was investigated. The current investigation was based on the application of kinetic triplets and geometrical characteristics of thermal analysis curves in identifying the main bioactive compounds that govern the thermal and thermo-oxidative degradation mechanisms. From established kinetic model in an argon atmosphere, it was found that released products arise from decomposition of phenolic compounds where autocatalysis may occurs from the inevitable presence of water already in the early stages of the process through the hydrolysis reaction pathway. In the case of thermo-oxidative degradation, it was found that the main mechanistic scheme can be presented with two different forms of reaction mechanism function, such as: nth order reaction model (with n > 1) (in lower heating mode) and ?esták-Berggren autocatalytic model (in higher heating mode). Isoconversional analysis has been shown that neochlorogenic acid represents the governed bioactive compound which has a strong hydrogen-donating activity. Based on the mechanistic conclusions, it was established that in an air atmosphere, the cyanidin-3-glucosylrutinoside (Cy-3-GR) degradation significantly participates in overall complex mechanism.     

Integration of open access literature into the RCSB Protein Data Bank using BioLit

Background  

Biological data have traditionally been stored and made publicly available through a variety of on-line databases, whereas biological knowledge has traditionally been found in the printed literature. With journals now on-line and providing an increasing amount of open access content, often free of copyright restriction, this distinction between database and literature is blurring. To exploit this opportunity we present the integration of open access literature with the RCSB Protein Data Bank (PDB).     

Intrinsically Disordered Regions May Lower the Hydration Free Energy in Proteins: A Case Study of Nudix Hydrolase in the Bacterium Deinococcus radiodurans

The proteome of the radiation- and desiccation-resistant bacterium D. radiodurans features a group of proteins that contain significant intrinsically disordered regions that are not present in non-extremophile homologues. Interestingly, this group includes a number of housekeeping and repair proteins such as DNA polymerase III, nudix hydrolase and rotamase. Here, we focus on a member of the nudix hydrolase family from D. radiodurans possessing low-complexity N- and C-terminal tails, which exhibit sequence signatures of intrinsic disorder and have unknown function. The enzyme catalyzes the hydrolysis of oxidatively damaged and mutagenic nucleotides, and it is thought to play an important role in D. radiodurans during the recovery phase after exposure to ionizing radiation or desiccation. We use molecular dynamics simulations to study the dynamics of the protein, and study its hydration free energy using the GB/SA formalism. We show that the presence of disordered tails significantly decreases the hydration free energy of the whole protein. We hypothesize that the tails increase the chances of the protein to be located in the remaining water patches in the desiccated cell, where it is protected from the desiccation effects and can function normally. We extrapolate this to other intrinsically disordered regions in proteins, and propose a novel function for them: intrinsically disordered regions increase the “surface-properties” of the folded domains they are attached to, making them on the whole more hydrophilic and potentially influencing, in this way, their localization and cellular activity.     

Dual antiplatelet therapy in patients with aspirin resistance following coronary artery bypass grafting: study protocol for a randomized controlled trial [NCT01159639

ABSTRACT: BACKGROUND: Coronary artery disease remains the dominant cause of mortality in developed countries. While platelets have been recognized to play a pivotal role in atherothrombosis, the ideal antiplatelet regime after coronary artery surgery remains elusive.The evolution of CABG has presently moved beyond technical improvements to involve modulation of pharmacologic management designed to improve patient outcomes. The aim of this trial will be to test the hypothesis that the addition of clopidogrel to patients with documented postoperative aspirin resistance will reduce the incidence of major cardiovascular events. METHODS: Patients scheduled for isolated coronary artery surgery will be eligible for the study. Patients in whom postoperative multiple electrode aggregometry documents aspirin resistance will be randomized into two groups. The control group will receive 300 mg of aspirin. The dual antiplatelet group will receive 75 mg of clopidogrel in addition to 300 mg of aspirin. Patients will be followed for 6 months. Major adverse cardiac and cerebrovascular events (death from any cause, myocardial infarction, stroke, hospitalization due to cardiovascular pathology) as well as bleeding events will be recorded. DISCUSSION: This will be the first trial that will specifically address the issue of dual antiplatelet therapy in patients undergoing coronary artery surgery who have been found to be aspirin resistant. In the event that the addition of clopidogrel proves to be beneficial in this subset of surgical patients, this study could significantly impact their future antiplatelet management.This randomized controlled trial has been registered at the ClinicalTrials.gov website (Identifier NCT01159639).     

Effects of loading on maximum vertical jumps: Selective effects of weight and inertia

A novel loading method was applied to explore selective effects of externally added weight (W), weight and inertia (W+I), and inertia (I) on maximum counter-movement jumps (CMJ) performed with arm swing. Externally applied extended rubber bands and/or loaded vest added W, W+I, and I corresponding to 10-40% of subjects' body mass. As expected, an increase in magnitude of all types of load was associated with an increase in ground reaction forces (GRF), as well as with a decrease in both the jumping performance and power output. However, of more importance could be that discernible differences among the effects of W, W+I, and I were recorded despite a relatively narrow loading range. In particular, an increase in W was associated with the minimal changes in movement kinematic pattern and smallest reduction of jumping performance, while also allowing for the highest power output. Conversely, W+I was associated with the highest ground reaction forces. Finally, the lowest maxima of GRF and power were associated with I. Although further research is apparently needed, the obtained finding could be of potential importance not only for understanding fundamental properties of the neuromuscular system, but also for optimization of loading in standard athletic training and rehabilitation procedures.     

Overweight and obesity in Slovenian schoolgirls, 1991-2006

The proportion of overweight children and adults has been growing rapidly in the last few years in many European and other countries. Certain consequences of overweight are already manifested in youth; in adulthood they are one of the main causes of death and several diseases. The study examined the proportion of overweight and obese Slovenian girls aged 7 to 18 with the use of an annually repeated cross-sectional study. The study lasted from 1991 to 2006 and was based on the body mass index according to IOTF norms. The results show that in this period the proportion of overweight girls increased by almost 30% (from 13.5% to 18.8%), whereas the proportion of obese girls doubled (from 2.3% to 4.6%). The prevalence of overweight and obesity is highest in childhood and early adolescence where it is around two to three times higher than at the age of 18.