Miracle-dz/UniFAR-FTUs huggingface dataset:
Echovirus 1 infection depends on biogenesis of novel multivesicular bodies

Non‐enveloped picornavirus echovirus 1 (EV1) clusters its receptor α2β1 integrin and causes their internalization and accumulation in α2β1 integrin enriched multivesicular bodies (α2‐MVBs). Our results here show that these α2‐MVBs are distinct from acidic late endosomes/lysosomes by several criteria: (i) live intra‐endosomal pH measurements show that α2‐MVBs are not acidic, (ii) they are not positive for the late endosomal marker LBPA or Dil‐LDL internalized to lysosomes, and (iii) simultaneous stimulation of epidermal growth factor receptor (EGFR) and α2β1 integrin clustering leads to their accumulation in separate endosomes. EGFR showed downregulation between 15 min and 2 h, whereas accumulation of α2β1 integrin/EV1 led to an increase of integrin fluorescence in cytoplasmic vesicles further suggesting that EV1 pathway is separate from the lysosomal downregulation pathway. In addition, the results demonstrate the involvement of ESCRTs in the biogenesis of α2‐MVBs. Overexpression of dominant‐negative form of VPS4 inhibited biogenesis of α2‐MVBs and efficiently prevented EV1 infection. Furthermore, α2‐MVBs were positive for some members of ESCRTs such as Hrs, VPS37A and VPS24 and the siRNA treatment of TSG101, VPS37A and VPS24 inhibited EV1 infection. Our results show that the non‐enveloped EV1 depends on biogenesis of novel multivesicular structures for successful infection.
Myeloid Leukemia of Multiple Genes Implicated in the Pathogenesis of Chronic Tyrosine Kinase Activity Regulates the Expression BCR-ABL Updated

The BCR-ABL chimeric protein is thought to play a central role in the pathogenesis of Philadelphia (Ph) chromosome-positive leukemias, notably chronic myeloid leukemia (CML). There is compelling evidence that malignant transformation by BCR-ABL is critically dependent on its protein tyrosine kinase (PTK) activity. As a result, multiple signaling pathways are activated in a kinase-dependent manner, and thus the activation of such pathways may affect the expression of genes that confer the malignant phenotype. In this study, we used differential display to investigate the alterations of gene expression in BV173, a CML cell line derived from lymphoid blast crisis, after exposure to STI571, which selectively inhibits ABL PTK activity. We show that the expression of a set of 12 genes is correlated with the kinase activity and that the profile of these genes reflects mechanisms implicated in the pathogenesis of CML. Several of the genes show a consistent pattern of altered regulation in all Ph-positive lymphoid cell lines, whereas others appear to be unique to BV173 cells. We conclude that BCR-ABL PTK activity drives the expression of specific target genes that contribute to the malignant transformation of Ph-positive cells. The identification of downstream molecules with a consistent regulation pattern may provide suitable targets for therapeutic intervention in the future.
Indolent T-Lymphoblastic Proliferation: Report of a Case With an 11-Year History and Association With Myasthenia Gravis

T-lymphoblastic lymphoma is a high-grade malignant lymphoma with frequent occurrence in young males, mediastinal involvement, and systemic dissemination. Indolent T-lymphoblastic proliferations have rarely been recognized. In the present case, we report on an indolent T-lymphoblastic proliferation involving the oropharynx in a patient with myasthenia gravis with multiple local recurrences over an 11-year period without evidence of systemic dissemination. The T-lymphoblasts were consistently positive for terminal deoxynucleotidyl transferase (TdT), CD1, CD3, CD4, and CD8, corresponding to an intermediate thymocyte stage of differentiation. No cytokeratin-positive thymic epithelial cells were identified, ruling out an ectopic thymus or thymoma. T-receptor gene rearrangement studies by Southern blot revealed no monoclonal CT-beta rearrangement. Indolent T-lymphoblastic proliferations of undetermined clonality may rarely occur; predilection for involvement of oropharynx and possible association with myasthenia gravis are suggested.
Global status of mumps immunization and surveillance.

Mumps is an acute infectious disease caused by a paramyxovirus. The disease is usually mild, with fever, headache, myalgia and characteristic swelling of the salivary glands; up to one third of mumps infections are subclinical. However, the disease burden caused by mumps should not be underestimated. Up to 15% of mumps patients may develop meningitis, and a much smaller proportion (0.02– 0.03%) may develop encephalitis. Mumps is one of the main infectious causes of sensorineural deafness, which affects approximately 5 per 100 000 mumps cases. Pancreatitis is a complication in approximately 4% of mumps patients. Orchitis occurs in 20–30% of postpubertal men with mumps; however, impaired fertility is extremely rare. Mumps infection in the first trimester of pregnancy is associated with a 25% incidence of spontaneous abortion, although congenital malformations following mumps infection in pregnancy have not been reported. This article reviews progress in the introduction of mumps vaccine around the world and analyses global surveillance data. Le point sur la vaccination antiourlienne et la surveillance des oreillons dans le monde
Sources and sinks of methane in the African savanna. CH4 emissions from biomass burning

Sources and sinks of atmospheric methane are studied in savanna regions of west and central Africa. Flux measured over dry savanna soils, using static chambers, is always negative the average uptake rate being 2×1010 molecules/cm2/s. In these regions, sources are linked to biomass burning. Methane and CO2 emission from combustion of savanna plants and wood is studied by both field experiments and laboratory experiments using a combustion chamber. For savanna plants most of the carbon (85%) contained in the biomaterial is volatilized as CO2 and 0.1 to 0.25% as methane. For graminaceous plants like loudetia simplex the ratio C-CH4/C-CO2 is 0.11%; it is 0.28% for hyparrhenia the other main type of savanna plants and it attains 1.4% for the combustion of wood. In natural fire plumes this ratio is around 0.26% for savanna fires and 0.56 to 2.22% for forest fires. These results show that methane release is highly dependent on the type of combustion. Methane to CO2 ratios are also studied in vertical profiles in the troposphere taken during the TROPOZ I campaign, an aerial research expedition carried out over west Africa during the bushfire period. Within polluted layers, the average ratio of CH4 to CO2 excess over ambient air concentration is 0.34%. These results show that biomass burning in tropical Africa constitutes an important source of atmospheric methane estimated to about 9.2×106 T(CH4)/yr.
Inequalities in healthcare provision for people with severe mental illness

There are many factors that contribute to the poor physical health of people with severe mental illness (SMI), including lifestyle factors and medication side effects. However, there is increasing evidence that disparities in healthcare provision contribute to poor physical health outcomes. These inequalities have been attributed to a combination of factors including systemic issues, such as the separation of mental health services from other medical services, healthcare provider issues including the pervasive stigma associated with mental illness, and consequences of mental illness and side effects of its treatment. A number of solutions have been proposed. To tackle systemic barriers to healthcare provision integrated care models could be employed including co-location of physical and mental health services or the use of case managers or other staff to undertake a co-ordination or liaison role between services. The health care sector could be targeted for programmes aimed at reducing the stigma of mental illness. The cognitive deficits and other consequences of SMI could be addressed through the provision of healthcare skills training to people with SMI or by the use of peer supporters. Population health and health promotion approaches could be developed and targeted at this population, by integrating health promotion activities across domains of interest. To date there have only been small-scale trials to evaluate these ideas suggesting that a range of models may have benefit. More work is needed to build the evidence base in this area.
CLN3p Impacts Galactosylceramide Transport, Raft Morphology, and Lipid Content

Juvenile neuronal ceroid lipofuscinosis (JNCL) belongs to the neuronal ceroid lipofuscinoses characterized by blindness/seizures/motor/cognitive decline and early death. JNCL is caused by CLN3 gene mutations that negatively modulate cell growth/apoptosis. CLN3 protein (CLN3p) localizes to Golgi/Rab4-/Rab11-positive endosomes and lipid rafts, and harbors a galactosylceramide (GalCer) lipid raft-binding domain. Goals are proving CLN3p participates in GalCer transport from Golgi to rafts, and GalCer deficits negatively affect cell growth/apoptosis. GalCer/mutant CLN3p are retained in Golgi, with CLN3p rescuing GalCer deficits in rafts. Diminishing GalCer in normal cells by GalCer synthase siRNA negatively affects cell growth/apoptosis. GalCer restores JNCL cell growth. WT CLN3p binds GalCer, but not mutant CLN3p. Sphingolipid content of rafts/Golgi is perturbed with diminished GalCer in rafts and accumulation in Golgi. CLN3-deficient raft vesicular structures are small by transmission electron microscopy, reflecting altered sphingolipid composition of rafts. CLN1/CLN2/CLN6 proteins bind to lysophosphatidic acid/sulfatide, CLN6/CLN8 proteins to GalCer, and CLN8 protein to ceramide. Sphingolipid composition/morphology of CLN1-/CLN2-/CLN6-/CLN8- and CLN9-deficient rafts are altered suggesting changes in raft structure/lipid stoichiometry could be common themes underlying these diseases.
A Robust Feature Point Matching Method for Dynamic Aerial Image Registration

Feature matching is a critical and challenging process in feature-based image registration. In this paper, a robust feature point matching method, combined Scale-Invariant Feature Transform (SIFT) and Support Vector Machine (SVM), is proposed to match features for registering dynamic aerial images. In this method, every feature point is described by 128 dimensional SIFT descriptor as a training vector. Then feature matching model is built by SVM. Using this model, feature points are classified into two categories, one is matched feature set and the other is unmatched feature set. Three pairs of infrared (IR) and ultraviolet (UV) aerial images are utilized to evaluate the performance. The matching results have confirmed that the proposed method can match the feature points exactly even with a lot of outliers.
Cryptococcus neoformans, Candida albicans, and other fungi bind specifically to the glycosphingolipid lactosylceramide (Gal beta 1-4Glc beta 1-1Cer), a possible adhesion receptor for yeasts

The role of glycosphingolipids as adhesion receptors for yeasts was examined. Cryptococcus neoformans, Candida albicans, and Saccharomyces cerevisiae, as well as Histoplasma capsulatum and Sporotrichum schenckii (in their yeast phases), bound specifically to lactosylceramide (Gal beta 1-4Glc beta 1-1Cer), as measured by overlaying glycosphingolipid chromatograms with 125I-labeled organisms. An unsubstituted galactosyl residue was required for binding, because the yeasts did not bind to glucosylceramide (Glc beta 1-1Cer) derived from lactosylceramide by treatment with beta-galactosidase or to other neutral or acidic glycosphingolipids tested that contained internal lactosyl residues. Interestingly, the yeasts preferentially bound to the upper band of the lactosylceramide doublet in human lung and bovine erythrocytes, suggesting that the ceramide structure also affects binding. Active metabolism of the yeasts was required for binding to lactosylceramide, as binding was maximal in buffer containing glucose and was almost completely abolished in nutrient-deficient medium. C. neoformans also bound to human glioma brain cells grown in monolayers, and this binding was inhibited by liposomes containing lactosylceramide but not by liposomes containing glucosylceramide. Lactosylceramide is a major glycosphingolipid in these cells and the only one to which the yeasts bound. As lactosylceramide is widely distributed in epithelial tissues, this glycosphingolipid may be the receptor for yeast colonization and disseminated disease in humans.
Identification of Rapeseed MicroRNAs Involved in Early Stage Seed Germination under Salt and Drought Stresses

Drought and salinity are severe and wide-ranging abiotic stresses that substantially affect crop germination, development and productivity, and seed germination is the first critical step in plant growth and development. To comprehensively investigate small-RNA targets and improve our understanding of miRNA-mediated post-transcriptional regulation networks during Brassica napus seed imbibition under drought and salt stresses, we constructed three small-RNA libraries from B. napus variety ZS11 embryos exposed to salt (200 mM NaCl, denoted “S”), drought (200 g L−1 PEG-6000, denoted “D”), and distilled water (denoted “CK”) during imbibition and sequenced them using an Illumina Genome Analyzer. A total of 11,528,557, 12,080,081, and 12,315,608 raw reads were obtained from the CK, D, and S libraries, respectively. Further analysis identified 85 known miRNAs belonging to 31 miRNA families and 882 novel miRNAs among the three libraries. Comparison of the D and CK libraries revealed significant down-regulation of six miRNA families, miR156, miR169, miR860, miR399, miR171, and miR395, whereas only miR172 was significantly up-regulated. In contrast, comparison of the S library with the CK library showed significant down-regulation of only two miRNA families: miRNA393 and miRNA399. Putative targets for 336, 376, and 340 novel miRNAs were successfully predicted in the CK, D, and S libraries, respectively, and 271 miRNA families and 20 target gene families [including disease resistance protein (DIRP), drought-responsive family protein (DRRP), early responsive to dehydration stress protein (ERD), stress-responsive alpha-beta barrel domain protein (SRAP), and salt tolerance homolog2 (STH2)] were confirmed as being core miRNAs and genes involved in the seed imbibition response to salt and drought stresses. The sequencing results were partially validated by quantitative RT-PCR for both conserved and novel miRNAs as well as the predicted target genes. Our data suggest that diverse and complex miRNAs are involved in seed imbibition, indicating that miRNAs are involved in plant hormone regulation, and may play important roles during seed germination under salt- or drought-stress conditions.
Automated Identification of River Hydromorphological Features Using UAV High Resolution Aerial Imagery

European legislation is driving the development of methods for river ecosystem protection in light of concerns over water quality and ecology. Key to their success is the accurate and rapid characterisation of physical features (i.e., hydromorphology) along the river. Image pattern recognition techniques have been successfully used for this purpose. The reliability of the methodology depends on both the quality of the aerial imagery and the pattern recognition technique used. Recent studies have proved the potential of Unmanned Aerial Vehicles (UAVs) to increase the quality of the imagery by capturing high resolution photography. Similarly, Artificial Neural Networks (ANN) have been shown to be a high precision tool for automated recognition of environmental patterns. This paper presents a UAV based framework for the identification of hydromorphological features from high resolution RGB aerial imagery using a novel classification technique based on ANNs. The framework is developed for a 1.4 km river reach along the river Dee in Wales, United Kingdom. For this purpose, a Falcon 8 octocopter was used to gather 2.5 cm resolution imagery. The results show that the accuracy of the framework is above 81%, performing particularly well at recognising vegetation. These results leverage the use of UAVs for environmental policy implementation and demonstrate the potential of ANNs and RGB imagery for high precision river monitoring and river management.
Development and Reliability of a Brazilian Portuguese Version of the MCMI-III

This paper describes the methodology used to translate the MCMI–III into Brazilian Portuguese and presents results from a reliability study conducted in Brazil with the translated instrument. The sample was comprised of 222 Brazilian college students. Test-retest correlations between first and second testings (over a period of 7 to 14 days) ranged from . 70 to . 93 across 27 scales. Cronbach's alpha coefficients ranged from . 54 to . 87. The procedures described in this paper represent preliminary steps in the development of a Brazilian Portuguese translation of the MCMI–III. Further studies are needed to obtain reliability data with a clinical sample, evaluate the diagnostic validity of the scales, and derive appropriate base rates for the Brazilian population.
Phase shift of the seasonal cycle in the Hadley Circulation in recent decades

A trend of phase shift in the seasonal cycle of the Hadley circulation is detected from the three reanalyses data. There is a strengthening trend of the North cell of Hadley circulation in March and April, and a strengthening trend of the South cell of Hadley circulation in September and October. The result indicates the properties of the boreal winter circulation tend to remain into boreal spring, and the boreal summer circulation into boreal autumn. Three major reanalyses show qualitatively the same tendency. The seasonal cycle in zonal averaged tropical precipitation and OLR, which are independent from the reanalyses, also shows a phase shift consistent with the Hadley circulation especially in September.
Sensorimotor performance in school‐age children with autism, developmental language disorder, or low IQ

The purpose of the study was to determine the prevalence of ‘soft’ motor deficits in school‐aged children with either developmental language disorder (DLD), autism (with high IQ [HiAD] or low IQ [LoAD]), or low IQ without autism (LoIQ), and to evaluate the utility of a refined neurological examination to discriminate between these groups. A total of 242 children (74% male), aged 7 or 9 years, were evaluated as part of a longitudinal, multi‐institutional study, with a standardized neurological examination that included Denckla's Physical and Neurological Examination for Soft Signs. Most of the scores separated children into two groups defined by nonverbal IQ, with the DLD and HiAD groups performing better than the LoAD and LoIQ groups. Exceptions included motor impersistence and stereotypies, which were more likely in the autistic groups. The neurologists ‘summary clinical impressions indicated better sensory’ motor skills, oromotor skills, and praxis in the HiAD than in the DLD children. Inability/unwillingness to perform tasks was much more frequent in LoAD than LoIQ children.
Beam-on imaging of short-lived positron emitters during proton therapy

In vivo dose delivery verification in proton therapy can be performed by positron emission tomography (PET) of the positron-emitting nuclei produced by the proton beam in the patient. A PET scanner installed in the treatment position of a proton therapy facility that takes data with the beam on will see very short-lived nuclides as well as longer-lived nuclides. The most important short-lived nuclide for proton therapy is 12N (Dendooven et al 2015 Phys. Med. Biol. 60 8923–47), which has a half-life of 11 ms. The results of a proof-of-principle experiment of beam-on PET imaging of short-lived 12N nuclei are presented. The Philips Digital Photon Counting Module TEK PET system was used, which is based on LYSO scintillators mounted on digital SiPM photosensors. A 90 MeV proton beam from the cyclotron at KVI-CART was used to investigate the energy and time spectra of PET coincidences during beam-on. Events coinciding with proton bunches, such as prompt gamma rays, were removed from the data via an anti-coincidence filter with the cyclotron RF. The resulting energy spectrum allowed good identification of the 511 keV PET counts during beam-on. A method was developed to subtract the long-lived background from the 12N image by introducing a beam-off period into the cyclotron beam time structure. We measured 2D images and 1D profiles of the 12N distribution. A range shift of 5 mm was measured as 6 ± 3 mm using the 12N profile. A larger, more efficient, PET system with a higher data throughput capability will allow beam-on 12N PET imaging of single spots in the distal layer of an irradiation with an increased signal-to-background ratio and thus better accuracy. A simulation shows that a large dual panel scanner, which images a single spot directly after it is delivered, can measure a 5 mm range shift with millimeter accuracy: 5.5 ± 1.1 mm for 1 × 108 protons and 5.2 ± 0.5 mm for 5 × 108 protons. This makes fast and accurate feedback on the dose delivery during treatment possible.
Maximizing and Counterfactual Thinking in Academic Major Decision Making

This study explored the role of decision-making orientation and post-decision thinking in one’s satisfaction with their choice of college major, as well as their motivation for tasks related to their major, perceptions of competence in major coursework, and their academic performance. Three hundred and seventy-eight college students in their junior or senior year completed a survey assessing the above variables. Results suggested that a maximizing decision-making orientation positively related to students’ tendency to engage in upward counterfactual thinking or evaluative thoughts toward the favorable outcomes of an alternative decision. Upward counterfactual thinking, in turn, negatively related to students’ satisfaction, value for coursework, perceived competence, and autonomous regulation within their major, as well as their overall grade point average, controlling for major college. The implications of these findings are discussed.