Miracle-dz/UniFAR-FTUs huggingface dataset:
Trace mineral supplies for populations of little and large herbivores

Copper (Cu), iron (Fe), and zinc (Zn) are essential trace minerals for the reproduction, growth, and immunity of mammalian herbivore populations. We examined the relationships between Cu, Fe, and Zn in soils, common plants, and hepatic stores of two wild herbivores to assess the effects of weather, sex, and population density on the transfer of trace minerals from soils to mammals during the growing season. Soils, grasses, woody browse, hispid cotton rats (Sigmodon hispidus), and white-tailed deer (Odocoileus virginianus) were sampled across 19 sites. Concentrations of Cu, Fe, and Zn in grasses and browse species were not correlated with concentrations of those minerals in soils sampled from the same areas. Leaves of woody browse were higher in Cu, lower in Fe, and similar in Zn when compared with grasses. Available concentrations of soils were positively related to liver Cu and Zn in hispid cotton rats, which was consistent with the short lives and high productivity of these small mammals that rely on grass seed heads. Interactions between soil concentrations and weather also affected liver Cu and Fe in deer, which reflected the greater complexity of trophic transfers in large, long-lived, browsing herbivores. Population density was correlated with liver concentrations of Cu, Fe, and Zn in hispid cotton rats, and concentrations of Cu and Fe in deer. Liver Cu was < 5 mg/kg wet weight in at least 5% of animals at two of eight sites for hispid cotton rats and < 3.8 mg/kg wet weight in at least 5% of animals at three of 12 sites for deer, which could indicate regional limitation of Cu for populations of mammalian herbivores. Our data indicate that supplies of trace minerals may contribute to density dependence of herbivore populations. Local population density may therefore influence the prevalence of deficiency states and disease outbreak that exacerbate population cycles in wild mammals.
Relation of Lipoprotein(a) Levels to Incident Type 2 Diabetes and Modification by Alirocumab Treatment

OBJECTIVE In observational data, lower levels of lipoprotein(a) have been associated with greater prevalence of type 2 diabetes. Whether pharmacologic lowering of lipoprotein(a) influences incident type 2 diabetes is unknown. We determined the relationship of lipoprotein(a) concentration with incident type 2 diabetes and effects of treatment with alirocumab, a PCSK9 inhibitor. RESEARCH DESIGN AND METHODS In the ODYSSEY OUTCOMES trial alirocumab was compared with placebo in patients with acute coronary syndrome. Incident diabetes was determined from laboratory, medication, and adverse event data. RESULTS Among 13,480 patients without diabetes at baseline, 1,324 developed type 2 diabetes over a median 2.7 years. Median baseline lipoprotein(a) was 21.9 mg/dL. With placebo, 10 mg/dL lower baseline lipoprotein(a) was associated with hazard ratio 1.04 (95% CI 1.02−1.06, P < 0.001) for incident type 2 diabetes. Alirocumab reduced lipoprotein(a) by a median 23.2% with greater absolute reductions from higher baseline levels and no overall effect on incident type 2 diabetes (hazard ratio 0.95, 95% CI 0.85–1.05). At low baseline lipoprotein(a) levels, alirocumab tended to reduce incident type 2 diabetes, while at high baseline lipoprotein(a) alirocumab tended to increase incident type 2 diabetes compared with placebo (treatment–baseline lipoprotein(a) interaction P = 0.006). In the alirocumab group, a 10 mg/dL decrease in lipoprotein(a) from baseline was associated with hazard ratio 1.07 (95% CI 1.03−1.12; P = 0.0002) for incident type 2 diabetes. CONCLUSIONS In patients with acute coronary syndrome, baseline lipoprotein(a) concentration associated inversely with incident type 2 diabetes. Alirocumab had neutral overall effect on incident type 2 diabetes. However, treatment-related reductions in lipoprotein(a), more pronounced from high baseline levels, were associated with increased risk of incident type 2 diabetes. Whether these findings pertain to other therapies that reduce lipoprotein(a) is undetermined.
RELATIONSHIPS BETWEEN INSTRUMENTAL MEASUREMENTS AND SENSORY EVALUATION IN INSTANT NOODLES STUDIED BY PARTIAL LEAST SQUARES REGRESSION

The PLS regression technique was used to study how chemical composition of the wheat flours and physical properties of dough (independent variables, x) were related to the sensory attributes (dependent variables, y) of instant noodles. Five wheat flours were characterized and physical properties of doughs were measured. About 68% of the variability in sensory could be explained by the chemical composition of flours and physical dough properties. The albumin, starch and amylose were positively and the total protein content, gliadin, globulin, ash, Zn and Mg were negatively related to sensory attributes along the PLS-factor1. Along the PLS-factor2, water and Ca of wheat flours were positively and negatively related to the sensory attributes, respectively. The PLS-factor1 consisted mainly of farinograms and extensograms parameters, while PLS-factor2 mainly described variation in gelatinization properties. The glutelin and SP had a small contribution to the sensory appeals of instant noodles.
Synthesis of tri-arm star di-block co-polymer containing poly(tetrahydrofuran-b-methyl methacrylate) arms via combination of cationic ring-opening polymerization and photosensitized free radical polymerization routes

Trimesic acid trichloride was used as a core to prepare a tri-arm star di-block co-polymer, namely poly(tetrahydrofuran-b-methyl methacrylate) (PTHF3-b-PMMA3), via combination of cationic ring-opening polymerization (CROP) and photo-induced radical polymerization routes. First, a trimesic acid trichloride–AgSbF6 or –AgCF3SO3 initiation system was utilized for the CROP of THF. The tri-arm star PTHF thus obtained was in situ terminated by 2-methyl pyridine N-oxide. Second, a sensitized irradiation of PTHF with a 2-methyl pyridinium N-oxide photoactive end-group in the presence of anthracene initiated the radical polymerization of MMA in order to give resulting star di-block co-polymer. The obtained polymers were characterized with gel-permeation chromatography (GPC) and 1H-NMR.
Charging, long-term stability, and TSD measurements of SiO/sub 2/ electrets

SiO/sub 2/ layers with thicknesses of 150 nm, 1 mu m, and 2.5 mu m were either thermally grown or made by chemical vapor deposition on silicon wafers. Negative and positive charging of the free SiO/sub 2/ surface was performed by means of liquid-contact, corona, and electron-beam methods. Partially penetrating electrons were used to charge the volume of 2.5- mu m-thick SiO/sub 2/ layers. The good charge stability of negatively charged SiO/sub 2/ is demonstrated in isothermal measurements at room temperature and at 350 degrees C as well as in TSD experiments. In the isothermal measurements, positively charged samples showed a somewhat faster decay than negatively charged ones. The decay curves of negatively charged samples at elevated temperature can be interpreted with a simple theory based on carrier drift and compensation by conductivity. In the measured TSD spectra, the difference between differently charged samples is that the main peak of a positively charged sample appears at a much lower temperature than the peak of a negatively charged one. Samples positively charged with the corona or liquid contact method also show lower peak performance temperatures than samples positively charged with the electron-beam method. >
Plasmodesmata play pivotal role in sucrose supply to Meloidogyne graminicola‐caused giant cells in rice

Abstract On infection, plant‐parasitic nematodes establish feeding sites in roots from which they take up carbohydrates among other nutrients. Knowledge on how carbohydrates are supplied to the nematodes’ feeding sites is limited. Here, gene expression analyses showed that RNA levels of OsSWEET11 to OsSWEET15 were extremely low in both Meloidogyne graminicola (Mg)‐caused galls and noninoculated roots. All the rice sucrose transporter genes, OsSUT1 to OsSUT5, were either down‐regulated in Mg‐caused galls compared with noninoculated rice roots or had very low transcript abundance. OsSUT1 was the only gene up‐regulated in galls, at 14 days postinoculation (dpi), after being highly down‐regulated at 3 and 7 dpi. OsSUT4 was down‐regulated at 3 dpi. No noticeable OsSUTs promoter activities were detected in Mg‐caused galls of pOsSUT1 to ‐5::GUS rice lines. Loading experiments with carboxyfluorescein diacetate (CFDA) demonstrated that symplastic connections exist between phloem and Mg‐caused giant cells (GCs). According to data from OsGNS5‐ and OsGSL2‐overexpressing rice plants that had decreased and increased callose deposition, respectively, callose negatively affected Mg parasitism and sucrose supply to Mg‐caused GCs. Our results suggest that plasmodesmata‐mediated sucrose transport plays a pivotal role in sucrose supply from rice root phloem to Mg‐caused GCs, and OsSWEET11 to ‐15 and OsSUTs are not major players in it, although further functional analysis is needed for OsSUT1 and OsSUT4.
High-salt diet suppresses autoimmune demyelination by regulating the blood–brain barrier permeability

Significance Dietary salt intake has been considered an important risk factor for autoimmune diseases like multiple sclerosis (MS). Here we studied the effects of a high-salt diet (HSD) using a spontaneous autoimmune disease mouse model resembling MS. We found that high-salt consumption protects mice from developing the neurological disease by promoting the tightening of the blood–brain barrier and preventing the migration of autoreactive T cells into the CNS. Our results emphasize the multifarious effects of high-salt consumption in autoimmune disease susceptibility. Sodium chloride, “salt,” is an essential component of daily food and vitally contributes to the body’s homeostasis. However, excessive salt intake has often been held responsible for numerous health risks associated with the cardiovascular system and kidney. Recent reports linked a high-salt diet (HSD) to the exacerbation of artificially induced central nervous system (CNS) autoimmune pathology through changes in microbiota and enhanced TH17 cell differentiation [M. Kleinewietfeld et al., Nature 496, 518–522 (2013); C. Wu et al., Nature 496, 513–517 (2013); N. Wilck et al., Nature 551, 585–589 (2017)]. However, there is no evidence that dietary salt promotes or worsens a spontaneous autoimmune disease. Here we show that HSD suppresses autoimmune disease development in a mouse model of spontaneous CNS autoimmunity. We found that HSD consumption increased the circulating serum levels of the glucocorticoid hormone corticosterone. Corticosterone enhanced the expression of tight junction molecules on the brain endothelial cells and promoted the tightening of the blood–brain barrier (BBB) thereby controlling the entry of inflammatory T cells into the CNS. Our results demonstrate the multifaceted and potentially beneficial effects of moderately increased salt consumption in CNS autoimmunity.
Direct foliar uptake of phosphorus from desert dust.

Phosphorus (P) scarcity constrains plant growth in many ecosystems worldwide. In P-poor ecosystems, biogeochemical paradigm links plant productivity with the deposition of P-rich dust originating from desert storms. However, dust P usually has low bioavailability and is thought to be utilized solely via roots. We applied desert dust on the leaf-surface of P deficient and sufficient wheat, chickpea and maize to test the feasibility of direct foliar uptake of dust-P and investigate its related acquisition mechanisms. Foliar dust doubled the growth of P deficient chickpea and wheat, crops originating near the Syrian Desert. P deficiency stimulated several leaf modifications that enabled acquisition of up to 30% of the sparingly-soluble dust-P that conventionally perceived as unavailable. These modifications increased foliar dust capture, acidified the leaf surface and in chickpea, enhanced exudation of P-solubilizing organic acids. Maize (originating far from deserts) displayed only a marginal response to dust. The dramatic response of chickpea and wheat in comparison to maize suggest that plants that evolved in dust-rich ecosystems adopted specialized utilization strategies. Interestingly, the abovementioned foliar responses are comparable to known P uptake root responses. Given that P limitation is almost universal, foliar P uptake pathway will have significant ecological and agricultural implications.
Gallium vacancies and the growth stoichiometry of GaN studied by positron annihilation spectroscopy

We have applied positron spectroscopy to study the formation of vacancy defects in undoped n-type metal organic chemical vapor deposition grown GaN, where the stoichiometry was varied. Ga vacancies are found in all samples. Their concentration increases from 1016 to 1019 cm−3 when the V/III molar ratio increases from 1000 to 10 000. In nitrogen rich conditions Ga lattice sites are thus left empty and Ga vacancies are abundantly formed. The creation of Ga vacancies is accompanied by the decrease of free electron concentration from 1020 to 1016 cm−3, demonstrating their role as compensating centers.
Video Visits: Family Physician Experiences With Uptake During the COVID-19 Pandemic.

BACKGROUND AND OBJECTIVES With the emergence of COVID-19, telemedicine use has increased dramatically as clinicians and patients have looked for alternatives to face-to-face care. Prior research has shown high levels of patient satisfaction and comparable quality of care. Video visits have been hypothesized to be one way to reduce burnout among clinicians, but there has been minimal research on physician views of virtual care. We sought to measure family physician experience with video visits at the start of the COVID-19 pandemic. METHODS We identified all faculty and resident physicians at a large academic department of family medicine who had conducted a video visit in the prior month and conducted an anonymous online 12-question survey about their experiences, satisfaction, and barriers with care. RESULTS Most eligible physicians responded (102/109, 94%), of whom half (52%) reported this was their first month trying a video visit. There was very high satisfaction (91% very or somewhat satisfied). The majority of respondents felt that video visits were shorter (54%) or took the same amount of time (38%) as in-person visits. There was concern that many physicians had experienced a visit in which they felt video was not the appropriate platform given patient concerns. CONCLUSIONS This study is among the first to assess physician experience with video visits. As the visits are perceived as shorter, they may offer a unique opportunity to address clinician burnout. There was a high level of satisfaction at our institution despite multiple technical challenges.
Machine learning and applications in microbiology

ABSTRACT To understand the intricacies of microorganisms at the molecular level requires making sense of copious volumes of data such that it may now be humanly impossible to detect insightful data patterns without an artificial intelligence application called machine learning. Applying machine learning to address biological problems is expected to grow at an unprecedented rate, yet it is perceived by the uninitiated as a mysterious and daunting entity entrusted to the domain of mathematicians and computer scientists. The aim of this review is to identify key points required to start the journey of becoming an effective machine learning practitioner. These key points are further reinforced with an evaluation of how machine learning has been applied so far in a broad scope of real-life microbiology examples. This includes predicting drug targets or vaccine candidates, diagnosing microorganisms causing infectious diseases, classifying drug resistance against antimicrobial medicines, predicting disease outbreaks and exploring microbial interactions. Our hope is to inspire microbiologists and other related researchers to join the emerging machine learning revolution.
Lineage-specific selection and the evolution of virulence in the Candida clade

Significance Of the many microbial species on earth, only a small number are able to thrive in humans and cause disease. Comparison of closely related pathogenic and nonpathogenic species can therefore be useful in identifying key features that contribute to virulence. We created interspecies hybrids between Candida albicans, a prevalent fungal pathogen of humans, and Candida dubliniensis, a close, but much less pathogenic, relative. By comparing genome-wide expression differences between the two genomes in the same cell, we surmised that since the two species diverged from a common ancestor, natural selection has acted upon the expression level of an ancient metabolic pathway, illustrating that pathogenicity traits can arise over evolutionary timescales through small expression changes in deeply conserved proteins. Candida albicans is the most common cause of systemic fungal infections in humans and is considerably more virulent than its closest known relative, Candida dubliniensis. To investigate this difference, we constructed interspecies hybrids and quantified mRNA levels produced from each genome in the hybrid. This approach systematically identified expression differences in orthologous genes arising from cis-regulatory sequence changes that accumulated since the two species last shared a common ancestor, some 10 million y ago. We documented many orthologous gene-expression differences between the two species, and we pursued one striking observation: All 15 genes coding for the enzymes of glycolysis showed higher expression from the C. albicans genome than the C. dubliniensis genome in the interspecies hybrid. This pattern requires evolutionary changes to have occurred at each gene; the fact that they all act in the same direction strongly indicates lineage-specific natural selection as the underlying cause. To test whether these expression differences contribute to virulence, we created a C. dubliniensis strain in which all 15 glycolysis genes were produced at modestly elevated levels and found that this strain had significantly increased virulence in the standard mouse model of systemic infection. These results indicate that small expression differences across a deeply conserved set of metabolism enzymes can play a significant role in the evolution of virulence in fungal pathogens.
Epigenetic editing: Dissecting chromatin function in context

How epigenetic mechanisms regulate genome output and response to stimuli is a fundamental question in development and disease. Past decades have made tremendous progress in deciphering the regulatory relationships involved by correlating aggregated (epi)genomics profiles with global perturbations. However, the recent development of epigenetic editing technologies now enables researchers to move beyond inferred conclusions, towards explicit causal reasoning, through 'programing’ precise chromatin perturbations in single cells. Here, we first discuss the major unresolved questions in the epigenetics field that can be addressed by programable epigenome editing, including the context‐dependent function and memory of chromatin states. We then describe the epigenetic editing toolkit focusing on CRISPR‐based technologies, and highlight its achievements, drawbacks and promise. Finally, we consider the potential future application of epigenetic editing to the study and treatment of specific disease conditions.
Attentional salience and the neural substrates of response inhibition in borderline personality disorder

Abstract Background Impulsivity is a central symptom of borderline personality disorder (BPD) and its neural basis may be instantiated in a frontoparietal network involved in response inhibition. However, research has yet to determine whether neural activation differences in BPD associated with response inhibition are attributed to attentional saliency, which is subserved by a partially overlapping network of brain regions. Methods Patients with BPD (n = 45) and 29 healthy controls (HCs; n = 29) underwent functional magnetic resonance imaging while completing a novel go/no-go task with infrequent odd-ball trials to control for attentional saliency. Contrasts reflecting a combination of response inhibition and attentional saliency (no-go > go), saliency processing alone (oddball > go), and response inhibition controlling for attentional saliency (no-go > oddball) were compared between BPD and HC. Results Compared to HC, BPD showed less activation in the combined no-go > go contrast in the right posterior inferior and middle-frontal gyri, and less activation for oddball > go in left-hemispheric inferior frontal junction, frontal pole, superior parietal lobe, and supramarginal gyri. Crucially, BPD and HC showed no activation differences for the no-go > oddball contrast. In BPD, higher vlPFC activation for no-go > go was correlated with greater self-rated BPD symptoms, whereas lower vlPFC activation for oddball > go was associated with greater self-rated attentional impulsivity. Conclusions Patients with BPD show frontoparietal disruptions related to the combination of response inhibition and attentional saliency or saliency alone, but no specific response inhibition neural activation difference when attentional saliency is controlled. The findings suggest a neural dysfunction in BPD underlying attention to salient or infrequent stimuli, which is supported by a negative correlation with self-rated impulsiveness.
Effect of both dance exergame and a traditional exercise on state anxiety and enjoyment in women.

BACKGROUND Anxiety disorders affect many people around the world and women are more affected than men. Physical exercise might be an important nonpharmacological tool to ameliorate these disorders. The aim of this study was to compare state anxiety level and enjoyment between a dance exergame session and a traditional aerobic exercise. METHODS Twenty healthy young women completed 3 visits, on separate days. At the first visit, participants performed a graded exercise testing and familiarization procedures. In other two visits, participants completed two exercise sessions (dance exergame and traditional aerobic exercise), with similar intensities and duration. Each session lasted approximately 45 minutes. State anxiety level was evaluated before, immediately post- and 10 minutes post sessions. Enjoyment was evaluated immediately post sessions. RESULTS There was a significant interaction between session and time (p<0.001), a main effect of time (p=0.007) but no significant main effect of session (p=0.057) on state anxiety level. State anxiety level immediately post (p<0.001) and 10 minutes post-session (p<0.001) were significantly lower than pre-dance exergame session. There were no significant changes between pre-, immediately post and 10 minutes post-traditional aerobic exercise session (p>0.05). State anxiety level at immediately post dance exergame session was significantly lower than immediately post traditional aerobic exercise session (p=0.026). Dance exergame session was significantly more enjoyable than traditional aerobic exercise session (p<0.0001). CONCLUSIONS Dance exergames might be used as a tool to reduce anxiety level in young women.