Miracle-dz/UniFAR-FTUs huggingface dataset:
Messing with Bacterial Quorum Sensing

SUMMARY Quorum sensing is widely recognized as an efficient mechanism to regulate expression of specific genes responsible for communal behavior in bacteria. Several bacterial phenotypes essential for the successful establishment of symbiotic, pathogenic, or commensal relationships with eukaryotic hosts, including motility, exopolysaccharide production, biofilm formation, and toxin production, are often regulated by quorum sensing. Interestingly, eukaryotes produce quorum-sensing-interfering (QSI) compounds that have a positive or negative influence on the bacterial signaling network. This eukaryotic interference could result in further fine-tuning of bacterial quorum sensing. Furthermore, recent work involving the synthesis of structural homologs to the various quorum-sensing signal molecules has resulted in the development of additional QSI compounds that could be used to control pathogenic bacteria. The creation of transgenic plants that express bacterial quorum-sensing genes is yet another strategy to interfere with bacterial behavior. Further investigation on the manipulation of quorum-sensing systems could provide us with powerful tools against harmful bacteria.
Child and Family Characteristics Associated with Nonpromotion in Preprimary Education

Educational research has found few benefits of preprimary school nonpromotion; nevertheless, in many countries the practice remains quite common. The aim of this study is to extend knowledge regarding preprimary nonpromotion via investigation of a wide set of child and family characteristics deemed predictive and discriminative of different postkindergarten nonpromotion alternatives in Flanders, Belgium. The study participants were 3,633 children (3,375 were promoted to first grade, 138 repeated kindergarten, 71 transferred to special education, 49 attended a transition room). Child preacademic scores and psychosocial functioning were relatively strong predictors for promotion versus nonpromotion. Child and family demographic characteristics were more decisive regarding the choice between retention, special education, and a transition program. The study raises questions about nonpromotion practices in terms of selectivity mechanisms, prevention, and educational alternatives.
Stroke Mortality, Clinical Presentation and Day of Arrival: The Atherosclerosis Risk in Communities (ARIC) Study

Background. Recent studies report that acute stroke patients who present to the hospital on weekends have higher rates of 28-day mortality than similar patients who arrive during the week. However, how this association is related to clinical presentation and stroke type has not been systematically investigated. Methods and Results. We examined the association between day of arrival and 28-day mortality in 929 validated stroke events in the ARIC cohort from 1987–2004. Weekend arrival was defined as any arrival time from midnight Friday until midnight Sunday. Mortality was defined as all-cause fatal events from the day of arrival through the 28th day of followup. The presence or absence of thirteen stroke signs and symptoms were obtained through medical record review for each event. Binomial logistic regression was used to estimate odds ratios and 95% confidence intervals (OR; 95% CI) for the association between weekend arrival and 28-day mortality for all stroke events and for stroke subtypes. The overall risk of 28-day mortality was 9.6% for weekday strokes and 10.1% for weekend strokes. In models controlling for patient demographics, clinical risk factors, and event year, weekend arrival was not associated with 28-day mortality (0.87; 0.51, 1.50). When stratified by stroke type, weekend arrival was not associated with increased odds of mortality for ischemic (1.17, 0.62, 2.23) or hemorrhagic (0.37; 0.11, 1.26) stroke patients. Conclusions. Presence or absence of thirteen signs and symptoms was similar for weekday patients and weekend patients when stratified by stroke type. Weekend arrival was not associated with 28-day all-cause mortality or differences in symptom presentation for strokes in this cohort.
Common soil history is more important than plant history for arbuscular mycorrhizal community assembly in an experimental grassland diversity gradient

The relationship between biodiversity and ecosystem functioning strengthens with ecosystem age. However, the interplay between the plant diversity - ecosystem functioning relationship and Glomeromycotinian arbuscular mycorrhizal fungi (AMF) community assembly has not yet been scrutinized in this context, despite AMF’s role in plant survival and niche exploration. We study the development of AMF communities by disentangling soil- and plant-driven effects from year effects. Within a long-term grassland biodiversity experiment, the pre-existing plant communities of varying plant diversity were re-established as split plots with combinations of common plant and soil histories: split plots with neither common plant nor soil history, with only soil but no plant history, and with both common plant and soil history. We found that bulk soil AMF communities were primarily shaped by common soil history and additional common plant history had little effect. Further, the steepness of AMF diversity and plant diversity relationship did not strengthen over time, but AMF community evenness increased with common history. Specialisation of AMF towards plant species was low throughout giving no indication of AMF communities specialising or diversifying over time. The potential of bulk soil AMF as mediators of variation in plant and microbial biomass over time and hence as drivers of BEF relationships was low. Our results suggest that soil processes may be key for the build-up of plant community-specific mycorrhizal communities with likely feedback effects on ecosystem productivity, but the plant-available mycorrhizal pool in bulk soil itself does not explain the strengthening of BEF relationships over time.
Bad Seed or Good Seed? A Content Analysis of the Main Antagonists in Walt Disney- and Studio Ghibli-Animated Films

The purpose of this study is to examine the cultural difference in the portrayal of main antagonists between Walt Disney-animated films and Studio Ghibli-animated films. We analyze whether main antagonists engage with both prosocial and aggressive behaviors (including physical, indirect, and verbal aggression). Moreover, we explore demographics of main antagonists and context of each aggressive and prosocial act initiated by a main antagonist. Results from a content analysis showed that main antagonists in Studio Ghibli-animated films tend to participate in both prosocial and aggressive behaviors, while those in Walt Disney-animated films tend to commit only aggressive behaviors to harm others. This study concludes that the difference in the portrayal of main antagonists between Walt Disney-animated films and Studio Ghibli-animated films may reflect the difference between analytic and holistic thinking style.
Water quality deterioration: A study of household drinking water quality in rural Honduras

There is growing awareness that drinking-water can become contaminated following its collection from communal sources such as wells and tap-stands, as well as during its storage in the home. This study evaluated the post-supply drinking-water quality in three rural Honduran communities using either a protected hand-dug well or borehole supply. Water management practices were documented as a basis for further research to improve household drinking-water quality. Membrane filtration was used to compare thermotolerant coliform levels in samples taken from community wells and household drinking-water storage containers. Over a 2-year period, water quality was examined in 43 households and detailed observation made of typical collection, storage and usage practice. Substantial water quality deterioration occurred between the points of supply and consumption. Deterioration occurred regularly and frequently, and was experienced by the majority of study households. Only source water quality appeared to be a significant factor in determining household water quality. None of the storage factors examined, i.e. covering the container, type of container, the material from which the container was made, and hours stored, made any significant difference to the stored water quality. Observation of household water management shows that there are multiple points during the collection to use sequence where pollution could occur. The commonality of water management practice would be an asset in introducing appropriate intervention measures.
Text-independent F0 transformation with non-parallel data for voice conversion

In voice conversion, frame-level mean and variance normalization is typically used for fundamental frequency (F0) transformation, which is text-independent and requires no parallel training data. Some advanced methods transform pitch contours instead, but require either parallel training data or syllabic annotations. We propose a method which retains the simplicity and text-independence of the frame-level conversion while yielding high-quality conversion. We achieve these goals by (1) introducing a text-independent tri-frame alignment method, (2) including delta features of F0 into Gaussian mixture model (GMM) conversion and (3) reducing the well-known GMM oversmoothing effect by F0 histogram equalization. Our objective and subjective experiments on the CMU Arctic corpus indicate improvements over both the mean/variance normalization and the baseline GMM conversion.
Sapovirus Translation Requires an Interaction between VPg and the Cap Binding Protein eIF4E

ABSTRACT Sapoviruses of the Caliciviridae family of small RNA viruses are emerging pathogens that cause gastroenteritis in humans and animals. Molecular studies on human sapovirus have been hampered due to the lack of a cell culture system. In contrast, porcine sapovirus (PSaV) can be grown in cell culture, making it a suitable model for understanding the infectious cycle of sapoviruses and the related enteric caliciviruses. Caliciviruses are known to use a novel mechanism of protein synthesis that relies on the interaction of cellular translation initiation factors with the virus genome-encoded viral protein genome (VPg) protein, which is covalently linked to the 5′ end of the viral genome. Using PSaV as a representative member of the Sapovirus genus, we characterized the role of the viral VPg protein in sapovirus translation. As observed for other caliciviruses, the PSaV genome was found to be covalently linked to VPg, and this linkage was required for the translation and the infectivity of viral RNA. The PSaV VPg protein was associated with the 4F subunit of the eukaryotic translation initiation factor (eIF4F) complex in infected cells and bound directly to the eIF4E protein. As has been previously demonstrated for feline calicivirus, a member of the Vesivirus genus, PSaV translation required eIF4E and the interaction between eIF4E and eIF4G. Overall, our study provides new insights into the novel mechanism of sapovirus translation, suggesting that sapovirus VPg can hijack the cellular translation initiation mechanism by recruiting the eIF4F complex through a direct eIF4E interaction. IMPORTANCE Sapoviruses, which are members of the Caliciviridae family, are one of the causative agents of viral gastroenteritis in humans. However, human sapovirus remains noncultivable in cell culture, hampering the ability to characterize the virus infectious cycle. Here, we show that the VPg protein from porcine sapovirus, the only cultivatable sapovirus, is essential for viral translation and functions via a direct interaction with the cellular translation initiation factor eIF4E. This work provides new insights into the novel protein-primed mechanism of calicivirus VPg-dependent translation initiation.
Noncoding RNA as Therapeutic Targets for Hepatocellular Carcinoma

Abstract Recent studies have suggested that noncoding RNAs (ncRNAs) contribute to the pathogenesis and progression of hepatocellular carcinoma (HCC). These RNA genes may be involved in various pathobiological processes such as cell proliferation, apoptosis, angiogenesis, invasion, and metastasis. Aberrant expression of ncRNA resulting from deregulated epigenetic, transcriptional, or posttranscriptional activity has been described in several studies. ncRNAs are comprised of a highly diverse group of transcripts that include microRNAs (miRNAs) and long noncoding RNAs (lncRNAs) as well as several other types of RNA genes. Understanding the molecular mechanisms by which ncRNA contribute to hepatocarcinogenesis may enable the design of ncRNA-based therapeutics for HCC. In this review, the authors provide a perspective on therapeutic applications based on the emerging evidence of a contributory role of miRNAs and lncRNAs to the pathogenesis and progression of HCC. In addition, ncRNAs that are deregulated in expression in HCC may have utility as potential prognostic or diagnostic markers.
Volume‐sensitive chloride channels in mouse cortical neurons: characterization and role in volume regulation

Because persistent swelling causes cell damage and often results in cell death, volume regulation is an important physiological function in both neuronal and non‐neuronal cells. Brain cell swelling has been observed not only in various pathological conditions but also during physiological synaptic transmissions. Volume‐sensitive anion channels have been reported to play an important role in the regulatory volume decrease occurring after osmotic swelling in many cell types. In this study, using a two‐photon laser scanning microscope and patch‐clamp techniques, we found that mouse cortical neurons in primary culture exhibit regulatory volume decrease after transient swelling and activation of Cl– currents during exposure to a hypotonic solution. The regulatory volume decrease was inhibited by Cl– channel blockers or K+ channel blockers. Swelling‐activated Cl– currents exhibited outward rectification, time‐dependent inactivation at large positive potentials, a low‐field anion permeability sequence, an intermediate unitary conductance and sensitivity to known blockers of volume‐sensitive Cl– channels. Thus, it is concluded that the activity of the volume‐sensitive outwardly rectifying Cl– channel plays a role in the control of cell volume in cortical neurons.
Does host contact structure reduce pathogen diversity

We investigate the dynamics of a simple epidemiological model for the invasion by a pathogen strain of a population where another strain circulates. We assume that reinfection by the same strain is possible but occurs at a reduced rate due to acquired immunity. The rate of reinfection by a distinct strain is also reduced due to cross-immunity. Individual based simulations of this model on a `small-world' network show that the host contact network structure significantly affects the outcome of such an invasion, and as a consequence will affect the patterns of pathogen evolution. In particular, host populations interacting through a 'small-world' network of contacts support lower prevalence of infection than well-mixed populations, and the region in parameter space for which an invading strain can become endemic and coexist with the circulating strain is smaller, reducing the potential to accommodate pathogen diversity. We discuss the underlying mechanisms for the reported effects, and we propose an effective mean-field model to account for the contact structure of the host population in 'small-world' networks.
MapReduce-based computation of area skyline query for selecting good locations in a map

Selection of good locations in a map is an indispensable function in many applications. In order to select specific locations, we have to specify detailed selection criteria. However, it is not easy especially for users of mobile devices. Therefore, we used an idea of skyline queries, which are known to be easy and effective to retrieve interesting data from a database. In our previous work, we have proposed area skyline query that selects good locations in a map. However, the query is not fast enough for handling “big data”. We simplify and revise the algorithm of the query in this paper by using MapReduce framework so that we can use it for big data. Experiments' results demonstrate that the performance and scalability are superior to previous area skyline algorithm and are able to handle big data.
Scanning Electron Microscopy-Based Approach to Understand the Mechanism Underlying the Adhesion of Dengue Viruses on Ceramic Hydroxyapatite Columns

Although ceramic hydroxyapatite (HAp) chromatography has been used as an alternative method ultracentrifugation for the production of vaccines, the mechanism of virus separation is still obscure. In order to begin to understand the mechanisms of virus separation, HAp surfaces were observed by scanning electron microscopy after chromatography with dengue viruses. When these processes were performed without elution and with a 10–207 mM sodium phosphate buffer gradient elution, dengue viruses that were adsorbed to HAp were disproportionately located in the columns. However, when eluted with a 10–600 mM sodium phosphate buffer gradient, few viruses were observed on the HAp surface. After incubating the dengue viruses that were adsorbed on HAp beads at 37°C and 2°C, the sphericity of the dengue viruses were reduced with an increase in incubation temperature. These results suggested that dengue virus was adsorbed to the HAp surface by electronic interactions and could be eluted by high-salt concentration buffers, which are commonly used in protein purification. Furthermore, virus fusion was thought to occur with increasing temperature, which implied that virus-HAp adhesion was similar to virus-cell adhesion.
Alineamiento Estratégico Sectorial: Caso de Estudio Aplicado a una Universidad Chilena

Resumen En el presente articulo se analiza la estructura del plan estrategico institucional y los planes sectoriales o de las unidades que conforman una universidad. La situacion de la Universidad del Bio Bio, ubicada en Concepcion (Chile) es tomada cono caso de estudio. A traves de una metodologia cualitativa y estructurada, tanto de aplicacion del conocimiento de las tematicas, como participativa en la confeccion y retroalimentacion de dichos planes, se evidencia que existen distintos estados de avances de estos procesos de planificacion estrategica. Este desnivel de avance afecta la rapidez del logro del alineamiento sectorial al institucional. Para lograr el alineamiento de los planes de las distintas unidades (Facultades, Departamentos, Escuelas) al Plan de Desarrollo Corporativo se adopto en forma exitosa un modelo propuesto por el estamento directivo de la universidad. Palabras clave: alineamiento estrategico, planificacion estrategica, planes de desarrollo, gestion universitaria
A Review of The Stern Review on the Economics of Climate Change

The Stern Review calls for immediate decisive action to stabilize greenhouse gases because "the benefits of strong, early action on climate change outweighs the costs. " The economic analysis supporting this conclusion consists mostly of two basic strands. The first strand is a formal aggregative model that relies for its conclusions primari- ly upon imposing a very low discount rate. Concerning this discount-rate aspect, I am skeptical of the Review's formal analysis, but this essay points out that we are actual- ly a lot less sure about what interest rate should be used for discounting climate change than is commonly acknowledged. The Review's second basic strand is a more intuitive argument that it might be very important to avoid possibly large uncertain- ties that are difficult to quantify. Concerning this uncertainty aspect, I argue that it might be recast into sound analytical reasoning that might justify some of the Review's conclusions. The basic issue here is that spending money to slow global warming should perhaps not be conceptualized primarily as being about consump- tion smoothing as much as being about how much insurance to buy to offset the small change of a ruinous catastrophe that is difficult to compensate by ordinary savings.
Cephalic arch stenosis: angioplasty to preserve a brachiocephalic fistula or new brachiobasilic fistula?: a cost-effectiveness study

Abstract Background: Our aim was to evaluate the cost-effectiveness of repeat angioplasty versus new brachiobasilic fistula (BBF) in patients with symptomatic cephalic arch stenosis (CAS). Methods: Patients presenting with symptomatic CAS (n = 22) underwent angioplasty. They were compared to patients undergoing BBF creation (n = 51). Primary outcomes were functional primary arteriovenous fistulae patency at 3, 6 and 12 months. Data were collected on number of interventions, alternative accesses and hospital days for access-related complications. Quality of life was assessed using Kidney Disease Quality of Life-36 scores. Decision tree, Monte Carlo simulation and sensitivity analysis permitted cost-utility analysis. Healthcare costs were derived from Department of Health figures and are presented as cost (£)/patient/year, cost/access preserved and cost/quality of life-adjusted year (QALY) for each of the treatment strategies. Results: Functional primary patency rates at 3, 6, 12 months were 87.5%, 81% and 43% for repeated angioplasty and 78%, 63% and 41% for BBF. The angioplasty cohort required 1.64 ± 0.23 angioplasties/patient and 0.64 ± 0.34 lines/patient. BBF required 0.36 ± 0.12 angioplasties/patient and 1.2 ± 0.2 lines/patient. Patients in the BBF cohort spent an additional 0.9 days/year in hospital due to access-related complications. Mean cost/patient/year in the angioplasty group was £5247.72/patient/year versus £3807.55/patient/year in the BBF cohort. Mean cost per access saved was £11,544.98 (angioplasty) versus £4979.10 (BBF). Average cost per QALY was £13,809.79 (angioplasty) versus £10,878.72 per QALY (BBF). Conclusions: CAS poses a difficult management problem with poor outcomes from conventional angioplasty. Optimal management will depend on patient factors, local outcomes and expertise, but consideration should be given to creation of a new BBF as a cost-effective means to manage this difficult problem.
Early blood pressure, antihypotensive therapy and outcomes at 18–22 months’ corrected age in extremely preterm infants

Objective To investigate the relationships between early blood pressure (BP) changes, receipt of antihypotensive therapy and 18–22 months’ corrected age (CA) outcomes for extremely preterm infants. Design Prospective observational study of infants 230/7–266/7 weeks’ gestational age (GA). Hourly BP values and antihypotensive therapy exposure in the first 24 h were recorded. Four groups were defined: infants who did or did not receive antihypotensive therapy in whom BP did or did not rise at the expected rate (defined as an increase in the mean arterial BP of ≥5 mm Hg/day). Random-intercept logistic modelling controlling for centre clustering, GA and illness severity was used to investigate the relationship between BP, antihypotensive therapies and infant outcomes. Setting Sixteen academic centres of the Eunice Kennedy Shriver National Institute of Child Health and Human Development Neonatal Research Network. Main outcome measures Death or neurodevelopmental impairment/developmental delay (NIDD) at 18–22 months’ CA. Results Of 367 infants, 203 (55%) received an antihypotensive therapy, 272 (74%) survived to discharge and 331 (90%) had a known outcome at 18–22 months’ CA. With logistic regression, there was an increased risk of death/NIDD with antihypotensive therapy versus no treatment (OR 1.836, 95% CI 1.092 to 3.086), but not NIDD alone (OR 1.53, 95% CI 0.708 to 3.307). Conclusions Independent of early BP changes, antihypotensive therapy exposure was associated with an increased risk of death/NIDD at 18–22 months’ CA when controlling for risk factors known to affect survival and neurodevelopment. Clinical trial registration number clinicaltrials.gov #NCT00874393.