Miracle-dz/UniFAR-FTUs huggingface dataset:
Independent Analysis of the Flagellum Surface and Matrix Proteomes Provides Insight into Flagellum Signaling in Mammalian-infectious Trypanosoma brucei*

The flagellum of African trypanosomes is an essential and multifunctional organelle that functions in motility, cell morphogenesis, and host-parasite interaction. Previous studies of the trypanosome flagellum have been limited by the inability to purify flagella without first removing the flagellar membrane. This limitation is particularly relevant in the context of studying flagellum signaling, as signaling requires surface-exposed proteins in the flagellar membrane and soluble signaling proteins in the flagellar matrix. Here we employ a combination of genetic and mechanical approaches to purify intact flagella from the African trypanosome, Trypanosoma brucei, in its mammalian-infectious stage. We combined flagellum purification with affinity-purification of surface-exposed proteins to conduct independent proteomic analyses of the flagellum surface and matrix fractions. The proteins identified encompass a broad range of molecular functionalities, including many predicted to function in signaling. Immunofluorescence and RNA interference studies demonstrate flagellum localization and function for proteins identified and provide insight into mechanisms of flagellum attachment and motility. The flagellum surface proteome includes many T. brucei-specific proteins and is enriched for proteins up-regulated in the mammalian-infectious stage of the parasite life-cycle. The combined results indicate that the flagellum surface presents a diverse and dynamic host-parasite interface that is well-suited for host-parasite signaling.
Solid lipid nanoparticles for thermoresponsive targeting: evidence from spectrophotometry, electrochemical, and cytotoxicity studies

Thermoresponsive drug delivery systems are designed for the controlled and targeted release of therapeutic payload. These systems exploit hyperthermic temperatures (>39°C), which may be applied by some external means or due to an encountered symptom in inflammatory diseases such as cancer and arthritis. The objective of this paper was to provide some solid evidence in support of the hypothesis that solid lipid nanoparticles (SLNs) can be used for thermoresponsive targeting by undergoing solid–liquid phase transition at their melting point (MP). Thermoresponsive lipid mixtures were prepared by mixing solid and liquid natural fatty acids, and their MP was measured by differential scanning calorimetry (DSC). SLNs (MP 39°C) containing 5-fluorouracil (5-FU) were synthesized by hot melt encapsulation method, and were found to have spherical shape (transmission electron microscopy studies), desirable size (<200 nm), and enhanced physicochemical stability (Fourier transform infrared spectroscopy analysis). We observed a sustained release pattern (22%–34%) at 37°C (5 hours). On the other hand, >90% drug was released at 39°C after 5 hours, suggesting that the SLNs show thermoresponsive drug release, thus confirming our hypothesis. Drug release from SLNs at 39°C was similar to oleic acid and linoleic acid nanoemulsions used in this study, which further confirmed that thermoresponsive drug release is due to solid–liquid phase transition. Next, a differential pulse voltammetry-based electrochemical chemical detection method was developed for quick and real-time analysis of 5-FU release, which also confirmed thermoresponsive drug release behavior of SLNs. Blank SLNs were found to be biocompatible with human gingival fibroblast cells, although 5-FU-loaded SLNs showed some cytotoxicity after 24 hours. 5-FU-loaded SLNs showed thermoresponsive cytotoxicity to breast cancer cells (MDA-MB-231) as cytotoxicity was higher at 39°C (cell viability 72%–78%) compared to 37°C (cell viability >90%) within 1 hour. In conclusion, this study presents SLNs as a safe, simple, and effective platform for thermoresponsive targeting.
Two distinct DNA sequences recognized by transcription factors represent enthalpy and entropy optima

Most transcription factors (TFs) are thought to recognize a single optimal sequence, with mutations to this sequence decreasing binding in a multiplicative manner. However, some TFs display epistasis, with multiple substitutions to their optimal site alleviating each other’s effects. These TFs can bind to two distinct sequences that represent two local optima in the Gibbs free energy of binding (ΔG). To determine the molecular mechanism behind this effect, we solved the structures of human HOXB13 and CDX2 proteins bound to their two optimal DNA sequences, CAATAAA and TCGTAAA. Striking differences were observed in the recognition of the distinct part of the sequence. Whereas the CAA trinucleotide was recognized by a network of direct and water-mediated hydrogen bonds, no such interactions were visible in the TCG structures of both TFs, suggesting that the solvent molecules at the interface were disordered. Thermodynamic analyses by isothermal titration calorimetry (ITC) revealed that both sites were bound with similar ΔG. However, the interaction with the CAA sequence was driven by change in enthalpy (ΔH), whereas the TCG site was bound with similar affinity due to a smaller loss of entropy (ΔS). Additional analysis of BARHL2 and MYF5 using ITC confirmed the presence of entropic and enthalpic optima also for these TFs that can recognize two distinct sequences. The common presence of at least two local optima is general to all macromolecular interactions, as ΔG depends on two partially independent variables ΔH and ΔS according to the central equation of thermodynamics, ΔG = ΔH - TΔS.
Folate, vitamin B12 and homocysteine in relation to birth defects and pregnancy outcome

Increased folate intake reduces the risk of neural tube defects, other malformations and also possibly, pregnancy complications. Increasing evidence suggests that the beneficial effect of folate may be related to improved function of methionine synthase, a vitamin B12-dependent enzyme that converts homocysteine to methionine. In India, the majority of the population adheres to a vegetarian diet known to be deficient in vitamin B12. In such a population, increased folate intake may offer minimal protection against birth defects, whereas vitamin B12 administration should be considered. In this review, is described the metabolism of and interrelations between folate, vitamin B12 and homocysteine. This is followed by a brief discussion of some of the proposed mechanisms for their biological effects in relation to birth defects and pregnancy outcome.
Microarray Analysis of Paramecium bursaria Chlorella Virus 1 Transcription

ABSTRACT Paramecium bursaria chlorella virus 1 (PBCV-1), a member of the family Phycodnaviridae, is a large double-stranded DNA, plaque-forming virus that infects the unicellular green alga Chlorella sp. strain NC64A. The 330-kb PBCV-1 genome is predicted to encode 365 proteins and 11 tRNAs. To monitor global transcription during PBCV-1 replication, a microarray containing 50-mer probes to the PBCV-1 365 protein-encoding genes (CDSs) was constructed. Competitive hybridization experiments were conducted by using cDNAs from poly(A)-containing RNAs obtained from cells at seven time points after virus infection. The results led to the following conclusions: (i) the PBCV-1 replication cycle is temporally programmed and regulated; (ii) 360 (99%) of the arrayed PBCV-1 CDSs were expressed at some time in the virus life cycle in the laboratory; (iii) 227 (62%) of the CDSs were expressed before virus DNA synthesis begins; (iv) these 227 CDSs were grouped into two classes: 127 transcripts disappeared prior to initiation of virus DNA synthesis (considered early), and 100 transcripts were still detected after virus DNA synthesis begins (considered early/late); (v) 133 (36%) of the CDSs were expressed after virus DNA synthesis begins (considered late); and (vi) expression of most late CDSs is inhibited by adding the DNA replication inhibitor, aphidicolin, prior to virus infection. This study provides the first comprehensive evaluation of virus gene expression during the PBCV-1 life cycle.
Vitamin D signalling in adipose tissue

Vitamin D deficiency and the rapid increase in the prevalence of obesity are both considered important public health issues. The classical role of vitamin D is in Ca homoeostasis and bone metabolism. Growing evidence suggests that the vitamin D system has a range of physiological functions, with vitamin D deficiency contributing to the pathogenesis of several major diseases, including obesity and the metabolic syndrome. Clinical studies have shown that obese individuals tend to have a low vitamin D status, which may link to the dysregulation of white adipose tissue. Recent studies suggest that adipose tissue may be a direct target of vitamin D. The expression of both the vitamin D receptor and 25-hydroxyvitamin D 1α-hydroxylase (CYP27B1) genes has been shown in murine and human adipocytes. There is evidence that vitamin D affects body fat mass by inhibiting adipogenic transcription factors and lipid accumulation during adipocyte differentiation. Some recent studies demonstrate that vitamin D metabolites also influence adipokine production and the inflammatory response in adipose tissue. Therefore, vitamin D deficiency may compromise the normal metabolic functioning of adipose tissue. Given the importance of the tissue in energy balance, lipid metabolism and inflammation in obesity, understanding the mechanisms of vitamin D action in adipocytes may have a significant impact on the maintenance of metabolic health. In the present review, we focus on the signalling role of vitamin D in adipocytes, particularly the potential mechanisms through which vitamin D may influence adipose tissue development and function.
Parasite Biodiversity and Emerging Pathogens: A Role for Systematics in Limiting Impacts on Genetic Resources

Emergence of pathogenic organisms continues as a threat to overall biodiversity and genetic resources. Macroparasites including helminthsconstitutea potentialthreat to economically important resources in agriculture and conservation biology. Limitation of this threat can be achieved through survey and inventory for biodiversity and the application of systematics to understand the host range , biogeography and history of faunas. Systematics constitutes the foundation for recognition of endemic and introduced elements of faunas and the basis for predic ting the beha vior of pathogens introduced to new ecological settings or host groups. The basis for emergence of pathogens has both a deep historical and a contemporary component. These concepts are addressed through an examination of the history of emergence of nematod e parasites of ruminants, including Nematodirus battus in sheep and Umingmakstrongylus pallikuukensis in muskoxen. Anth ropogenic factors, particularly translocation of hosts and parasites leading to introduction and establishment of exotic species. continue asdeterminants of emergence. Ownership of biodiversity and genetic resources also constitutes responsibility to control the introduction and dissemination of pathogenic organisms.
Mission planning, simulation and supervision of unmanned aerial vehicle with a gis-based framework

A framework for mission planning, simulation and supervision of unmanned aerial vehicles (UAV) has been developed. To provide a rich context for mission planning an Enhanced Reality is created from Geographic Information System (GIS) sources and dynamic aggregation of available geo-referenced data. The mission is expressed as statements and expressions of the Aerial Vehicle Control Language (AVCL), the abstraction mechanism needed to bridge the gap between a strategic mission planner and a heterogenous group of vehicles and active payloads. The framework is extendable by design and its aimed at the integration of diverse vehicles with existing systems. It has been tested as a Mission Planning and Simulation tool with our real-time small helicopter model.
Discovery of a rich gene pool of bat SARS-related coronaviruses provides new insights into the origin of SARS coronavirus

A large number of SARS-related coronaviruses (SARSr-CoV) have been detected in horseshoe bats since 2005 in different areas of China. However, these bat SARSr-CoVs show sequence differences from SARS coronavirus (SARS-CoV) in different genes (S, ORF8, ORF3, etc) and are considered unlikely to represent the direct progenitor of SARS-CoV. Herein, we report the findings of our 5-year surveillance of SARSr-CoVs in a cave inhabited by multiple species of horseshoe bats in Yunnan Province, China. The full-length genomes of 11 newly discovered SARSr-CoV strains, together with our previous findings, reveals that the SARSr-CoVs circulating in this single location are highly diverse in the S gene, ORF3 and ORF8. Importantly, strains with high genetic similarity to SARS-CoV in the hypervariable N-terminal domain (NTD) and receptor-binding domain (RBD) of the S1 gene, the ORF3 and ORF8 region, respectively, were all discovered in this cave. In addition, we report the first discovery of bat SARSr-CoVs highly similar to human SARS-CoV in ORF3b and in the split ORF8a and 8b. Moreover, SARSr-CoV strains from this cave were more closely related to SARS-CoV in the non-structural protein genes ORF1a and 1b compared with those detected elsewhere. Recombination analysis shows evidence of frequent recombination events within the S gene and around the ORF8 between these SARSr-CoVs. We hypothesize that the direct progenitor of SARS-CoV may have originated after sequential recombination events between the precursors of these SARSr-CoVs. Cell entry studies demonstrated that three newly identified SARSr-CoVs with different S protein sequences are all able to use human ACE2 as the receptor, further exhibiting the close relationship between strains in this cave and SARS-CoV. This work provides new insights into the origin and evolution of SARS-CoV and highlights the necessity of preparedness for future emergence of SARS-like diseases.
Prostaglandin E 2 inhibits IL-10 production by bovine CD 4 + T cells

Although prostaglandin E2 (PGE2) is a pro-inflammatory mediator, it also produces some effect which is anti-inflammatory in character. It is suggested that one of the mechanisms responsible for the latter effect is the increased synthesis of IL-10. The aim of this study has been to determine the influence of PGE2 on IL-10 production by bovine CD4 and CD8 T cells and NK cells. With this aim, peripheral blood mononuclear cells collected from 12-month-old heifers (n = 10) were treated without or with PGE2 (10 M). Flow cytometric analysis showed that PGE2 caused a reduction in the percentage of IL-10 producing CD4 T cells (P < 0.001), while leaving the secretion of this cytokine by CD8 T cells and NK cells unaffected. This seems to indicate that PGE2 in cattle does not produce an anti-inflammatory effect by increasing the synthesis of IL-10; contrary to this, it may aggravate an inflammatory response by inhibiting the secretion of this cytokine by CD4 T cells.
Semi-automatic alerts and notifications for emergency services based on cross-platform social media data - evaluation of a prototype

The convergence of social networking and mobile media technology is shifting the way how people communicate and gain or share information. People are using social media to a greater extent, also in emergency situations. During disasters throughout the world, such as the 2010 Haiti earthquake, the 2013 European floods, or the terror attacks 2015 in Paris and 2016 in Brussels, this has been illustrated again. Often information about disasters even finds its way faster to social media than it reaches regular news companies and emergency services. However, approaches for processing and analyzing the vast quantities of data produced have even more potential. Yet many emergency services still have not found a way to put this potential to an effective use. Within our project EmerGent we are developing a system to process and analyse information from social media particularly tailored for the specific needs of emergency services. The aim is to transform the high volume of noisy data into a low volume of rich content that is useful to emergency personnel. In the first part of this paper we present our approach from a user interface perspective. The second part deals with the evaluation of the approach and the derivation of future potentials of the approach.
ICSV 14 Cairns • Australia 9-12 July , 2007 VECTOR THEORY OF ULTRASONIC IMAGING

Sofar works on ultrasonic diffraction imaging are based on scalar theory of sound wave. This is not correct as sound has vector nature. When sound propagates in fluids it can be approximated as a scalar wave as there is no polarization. But when sound propagates in solids, its vector nature has to be considered as polarization occurs and transverse wave as well as longitudinal wave will appear. Vector theory is especially needed when the obstacle size is smaller than the wavelength. We use the Smythe-Kirchhoff approach for the vector theory of diffraction.Comparing the result with the scalar Kirchhoff approximation, we find that both contain the same diffraction distribution factor and the same dependence on wave number. But the scalar result has no azimuthal dependence whereas the vector expression does. The azimuthal dependence variation comes from the polarization properties of the field and must be absent in a scalar approximation. We use the analogy of the sound velocity as equivalent to the magnetic field and the acoustic stress field as equivalent to the electric field to convert our result from the electromagnetic case to the acoustic case. We then derive the image formation theory based on the vector diffraction theory. We use the angular spectrum approach. We found the existence of the components of the angular spectrum known as evanescent waves. These waves are more properly treated in a vectorial approach. We then discuss the effect of polarization on acoustical imaging.
Skipping Meals and its Possible Effects on Lipid Profile of Purposively Selected Civil Servants in Aba, Abia State, Nigeria

Non-communicable diseases (NCDs) such as heart diseases, stroke, diabetes, and cancer, now makeup two-thirds of all deaths globally, due to the ageing population and the spread of risk factors associated with globalization and urbanization [4]. By the year 2020, NCDs are expected to account for seven out of every ten deaths in the developing countries, compared with less than half today [24]. The World Health Report of WHO 1999 estimates that in 1998, 85 % of the Cardiovascular (CV) burden arose from the low and middle income countries. The CVD burden afflicts both men and women, with CV deaths accounting for 34 % of all deaths in women and 28 % in men in 1998 [17]. As the epidemics advances, the social gradient also reverses with the poor becoming the most vulnerable victims in both developed and developing countries [13].
Software Dependability in the Tandem GUARDIAN System

Based on extensive field failure data for Tandem's GUARDIAN operating system, the paper discusses evaluation of the dependability of operational software. Software faults considered are major defects that result in processor failures and invoke backup processes to take over. The paper categorizes the underlying causes of software failures and evaluates the effectiveness of the process pair technique in tolerating software faults. A model to describe the impact of software faults on the reliability of an overall system is proposed. The model is used to evaluate the significance of key factors that determine software dependability and to identify areas for improvement. An analysis of the data shows that about 77% of processor failures that are initially considered due to software are confirmed as software problems. The analysis shows that the use of process pairs to provide checkpointing and restart (originally intended for tolerating hardware faults) allows the system to tolerate about 75% of reported software faults that result in processor failures. The loose coupling between processors, which results in the backup execution (the processor state and the sequence of events) being different from the original execution, is a major reason for the measured software fault tolerance. Over two-thirds (72%) of measured software failures are recurrences of previously reported faults. Modeling, based on the data, shows that, in addition to reducing the number of software faults, software dependability can be enhanced by reducing the recurrence rate. >
Diabetes Mellitus And The Brain: Special Emphasis To Cognitive Function

Diabetes mellitus (DM) is a major public health problem. Cognitive deficits are common with DM which range from subclinical or subtle to severe deficits as dementia. Both hypoglycemia and hyperglycemia are causes of cognitive impairment with DM. In patients with DM, not only severe hypoglycemia but also recurrent mild or moderate hypoglycemia have deleterious effect on the brain. Recurrent mild/moderate hypoglycemia is associated with intellectual decline, reduced attention, impaired mental abilities and memory deficits. Hypoglycemia may result in abnormalities of neuronal plasticity, synaptic weakening and scattered neuronal death in the cerebral cortex and the hippocampus. Chronic hyperglycemia in type 1 and type 2 DM is associated with low IQ (verbal, performance and total) and abnormalities in testing for different domains of cognitive function as verbal relations, comprehension, visual reasoning, pattern analysis, quantitation, memory, learning, mental control, psychomotor efficiency, mental and motor processing speed and executive function. The suggested mechanisms incriminated in the pathogenesis of hyperglycemia related cognitive dysfunction include, macro- and micro-vascular disease or vasculopathy, hyperlipidemia, hypertension, insulin resistance and hyperinsulinemia, stress response, direct toxic effect of chronic hyperglycemia on the brain, advanced glycation end products, inflammatory cytokines and oxidative stress. Hyperglycemia causes oxidative stress, amyloidosis, angiopathy, abnormal lipid peroxidation, accumulation of β-amyloid and tau phosphorylation, neuroinflammation, mitochondrial pathology, apoptosis and neuronal degeneration in the cortex and hippocampus. Depression has been identified as a risk for accelerated cognitive decline with DM. The knowledge that diagnosis at early age, frequency of hypoglycemia, poor glycemic control and presence of risk factors which negatively affect cognitive functions in DM, will have important implications for treatment and for research purposes.