Miracle-dz/UniFAR-FTUs huggingface dataset:
Integrity of Neurocognitive Networks in Dementing Disorders as Measured with Simultaneous PET/Functional MRI

Functional MRI (fMRI) studies have reported altered integrity of large-scale neurocognitive networks (NCNs) in dementing disorders. However, findings on the specificity of these alterations in patients with Alzheimer disease (AD) and behavioral-variant frontotemporal dementia (bvFTD) are still limited. Recently, NCNs have been successfully captured using PET with 18F-FDG. Methods: Network integrity was measured in 72 individuals (38 male) with mild AD or bvFTD, and in healthy controls, using a simultaneous resting-state fMRI and 18F-FDG PET. Indices of network integrity were calculated for each subject, network, and imaging modality. Results: In either modality, independent-component analysis revealed 4 major NCNs: anterior default-mode network (DMN), posterior DMN, salience network, and right central executive network (CEN). In fMRI data, the integrity of the posterior DMN was found to be significantly reduced in both patient groups relative to controls. In the AD group the anterior DMN and CEN appeared to be additionally affected. In PET data, only the integrity of the posterior DMN in patients with AD was reduced, whereas 3 remaining networks appeared to be affected only in patients with bvFTD. In a logistic regression analysis, the integrity of the anterior DMN as measured with PET alone accurately differentiated between the patient groups. A correlation between indices of 2 imaging modalities was low overall. Conclusion: FMRI and 18F-FDG PET capture partly different aspects of network integrity. A higher disease specificity for NCNs as derived from PET data supports metabolic connectivity imaging as a promising diagnostic tool.
Impact of asthma and its medication on salivary characteristics and oral health in adolescents: A cross-sectional comparative study.

OBJECTIVE To assess and compare the salivary characteristics and oral health and to evaluate the impact of asthma and its medication on dental caries among adolescents with and without asthma. METHODS A cross-sectional comparative study was conducted among 50 asthmatic and 50 nonasthmatic adolescents aged 12-15 years in Bangalore City. Data were acquired using a structured questionnaire. Salivary samples were collected to determine the flow rate, pH, buffering capacity, and Streptococcus mutans and Lactobacilli counts. Oral health assessment was performed using WHO 2013 proforma. Inferential statistics such as chi-square, student's t-test, spearman's correlation, multinomial logistic. and stepwise linear regression were applied with P < . 05 considered as significant. RESULTS Asthmatic participants had significantly higher mean number of teeth with dental caries, gingival bleeding, and dental erosion than nonasthmatics (P < .05). The prevalence of fluorosis, traumatic dental injuries, and oral mucosal lesions in asthmatics were 34.0%, 38.0%, and 28.0%, respectively. Most of the asthmatic participants required preventive or routine (18.0%) and prompt treatment (30.0%). Statistically significant difference was found in the flow rate, pH, buffering capacity, S. mutans and Lactobacilli counts, and Decayed, Missing, Filled Teeth (DMFT) index between asthmatic and nonasthmatic participants. Severity of asthma, medication use, and dental caries experience significantly correlated with low salivary flow rate, pH and buffering capacity, and higher levels of S. mutans and Lactobacilli (P < .001). Asthmatic participants had significantly higher odds of having very low unstimulated salivary flow rate (odds ratio [OR] = 3.2), buffering capacity (OR = 2.94), highly acidic pH (OR = 3.65), high risk of S. mutans (OR = 6.02), and DMFT ≥ 1 (OR = 2.06) than nonasthmatics (P < .05). CONCLUSION Salivary characteristics and oral health were significantly poor in asthmatic adolescents. Asthma and its medications had significant impact on salivary characteristics and dental caries among asthmatic adolescents.
Extracellular Vesicles Secreted by Corneal Epithelial Cells Promote Myofibroblast Differentiation

The corneal epithelium mediates the initial response to injury of the ocular surface and secretes a number of profibrotic factors that promote corneal scar development within the stroma. Previous studies have shown that corneal epithelial cells also secrete small extracellular vesicles (EVs) in response to corneal wounding. In this paper, we hypothesized that EVs released from corneal epithelial cells in vitro contain protein cargo that promotes myofibroblast differentiation, the key cell responsible for scar development. We focused on the interplay between corneal epithelial-derived EVs and the stroma to determine if the corneal fibroblast phenotype, contraction, proliferation, or migration were promoted following vesicle uptake by corneal fibroblasts. Our results showed an increase in myofibroblast differentiation based on α-smooth muscle actin expression and elevated contractility following EV treatment compared to controls. Furthermore, we characterized the contents of epithelial cell-derived EVs using proteomic analysis and identified the presence of provisional matrix proteins, fibronectin and thrombospondin-1, as the dominant encapsulated protein cargo secreted by corneal epithelial cells in vitro. Proteins associated with the regulation of protein translation were also abundant in EVs. This paper reveals a novel role and function of EVs secreted by the corneal epithelium that may contribute to corneal scarring.
Eutely, cell lineage, and fate within the ascidian larval nervous system: determinacy or to be determined?

The larval central nervous system (CNS) of the ascidian Ciona intestinalis (L., 1767) arises from an embryonic neural plate and contains sufficiently few cells, about 330, to enable definitive counts. On the basis of such counts, there is evidence both for cell constancy (eutely) in the larval CNS and for small variations in the overall numbers of cells and among defined cell types within this total. However, evidence for the range of such deviations and the existence of a true phenotypic wild type are lacking. The record of cell lineage, i.e., the mitotic ancestry of each cell, and the fates of some of these cells have recently received increased documentation in both the genus Ciona and Halocynthia roretzi (von Drasche, 1884). Relatively few generations of cells, between 10 and 14, form the entire CNS in C. intestinalis, and cell death does not occur prior to larval hatching. The tiny complement of larval CNS cells can therefore be seen as the product of a small fixed number of determinate cleavages, an.
Hemiptera phylogenomic resources: Tree‐based orthology prediction and conserved exon identification

High‐throughput sequencing of transcriptomes and targeted genomic regions are advancing our knowledge of The Tree of Life. Building phylogenies with regions of the genome requires 1‐to‐1 orthologue resources of genes and noncoding loci. One organismal group that has received little attention in this area is the Hemiptera, the fifth largest insect order represented by ~103,590 named species. Here, we present a set of 3,872 Hemiptera 1‐to‐1 orthogroups based on tree‐based orthology inference of eight Hemiptera species with publicly available genome sequences. We also estimate a set of 406 orthologous exons with similar mRNA splice sites that can be used for Sanger sequencing and develop enrichment probes for targeted genome sequencing for phylogenomic inference. We show this novel set of orthologues is informative at the protein, coding sequence and exon molecular levels and provides robust branch support in both gene tree–species tree methods and concatenated sequence phylogenies. In addition, we demonstrate the utility of these loci to resolve relationships in whiteflies, Bemisia tabaci, a large species complex with few phylogenomic resources. Last, we compare our Hemiptera phylogeny with previously published phylogenies and other orthologue databases, while providing suggestions on further improvement to this phylogenomic resource.
Plant apparency, an overlooked driver of associational resistance to insect herbivory

Herbivore regulation is one of the services provided by plant diversity in terrestrial ecosystems. It has been suggested that tree diversity decreases insect herbivory in forests, but recent studies have reported opposite patterns, indicating that tree diversity can trigger associational resistance or susceptibility. The mechanisms underlying the tree diversity–resistance relationship thus remain a matter of debate. We assessed insect herbivory on pedunculate oak saplings (Quercus robur) in a large‐scale experiment in which we manipulated tree diversity and identity by mixing oaks, birch and pine species. Tree diversity at the plot scale had no effect on damage due to leaf chewers, but abundance of leaf miners decreased with increasing tree diversity. The magnitude of this associational resistance increased with host dilution, consistent with the ‘resource concentration hypothesis’. At a smaller scale, we estimated tree apparency as the difference in total height between focal oak saplings and their nearest neighbouring trees. Levels of oak infestation with leaf miners decreased significantly with decreasing tree apparency. As the probability of having taller neighbours increased with tree diversity, notably due to the increase in the proportion of faster growing nonhost trees, such as birches and pines, tree apparency may be seen as a ‘hidden’, sampling effect of tree diversity. Synthesis. These findings suggest that greater host dilution and lower tree apparency contribute to associational resistance in young trees. They also highlight the importance of taking plant size into account as a covariate, to avoid misleading interpretations about the biodiversity–resistance relationship.
Genetic aetiology of blood pressure relates to aortic stiffness with bi-directional causality: evidence from heritability, blood pressure polymorphisms, and Mendelian randomization.

AIMS Haemodynamic determinants of blood pressure (BP) include cardiac output (CO), systemic vascular resistance (SVR), and arterial stiffness. We investigated the heritability of these phenotypes, their association with BP-related single-nucleotide polymorphisms (SNPs), and the causal association between BP and arterial stiffness. METHODS AND RESULTS We assessed BP, central BP components, and haemodynamic properties (during a single visit) including CO, SVR, and pulse wave velocity (PWV, measure of arterial stiffness) in 3531 (1934 monozygotic, 1586 dizygotic) female TwinsUK participants. Heritability was estimated using structural equation modelling. Association with 984 BP-associated SNP was examined using least absolute shrinkage and selection operator (LASSO) and generalized estimating equation regression. One and two-sample Mendelian randomization (MR) was used to estimate the causal direction between BP and arterial stiffness including data on 436 419 UK Biobank participants. We found high heritability for systolic and pulsatile components of BP (>50%) and PWV (65%) with overlapping genes accounting for >50% of their observed correlation. Environmental factors explained most of the variability of CO and SVR (>80%). Regression identified SNPs (n = 5) known to be associated with BP to also be associated with PWV. One-sample MR showed evidence of bi-directional causal association between BP and PWV in TwinsUK participants. Two-sample MR, confirmed a bi-directional causal effect of PWV on BP (inverse variance weighted (IVW) beta = 0.11, P < 0.02) and BP on arterial stiffness (IVW beta = 0.004, P < 0.0001). CONCLUSION The genetic basis of BP is mediated not only by genes regulating BP but also by genes that influence arterial stiffness. Mendelian randomization indicates a bi-directional causal association between BP and arterial stiffness.
Overcoming the bottleneck to widespread testing: a rapid review of nucleic acid testing approaches for COVID-19 detection

The current COVID-19 pandemic presents a serious public health crisis, and a better understanding of the scope and spread of the virus would be aided by more widespread testing. Nucleic-acid-based tests currently offer the most sensitive and early detection of COVID-19. However, the “gold standard” test pioneered by the U.S. Centers for Disease Control and Prevention takes several hours to complete and requires extensive human labor, materials such as RNA extraction kits that could become in short supply, and relatively scarce qPCR machines. It is clear that a huge effort needs to be made to scale up current COVID-19 testing by orders of magnitude. There is thus a pressing need to evaluate alternative protocols, reagents, and approaches to allow nucleic-acid testing to continue in the face of these potential shortages. There has been a tremendous explosion in the number of papers written within the first weeks of the pandemic evaluating potential advances, comparable reagents, and alternatives to the “gold-standard” CDC RT-PCR test. Here we present a collection of these recent advances in COVID-19 nucleic acid testing, including both peer-reviewed and preprint articles. Due to the rapid developments during this crisis, we have included as many publications as possible, but many of the cited sources have not yet been peer-reviewed, so we urge researchers to further validate results in their own laboratories. We hope that this review can urgently consolidate and disseminate information to aid researchers in designing and implementing optimized COVID-19 testing protocols to increase the availability, accuracy, and speed of widespread COVID-19 testing.
Design of a multiplex quantitative reverse transcription‐PCR system to simultaneously detect 16 pathogens associated with bovine respiratory and enteric diseases

Bovine respiratory disease (BRD) and bovine enteric disease (BED) are two major diseases in cattle, resulting in severe economic losses in the dairy and beef industries. The two major diseases are associated with several factors such as viruses, bacteria, the health condition of the host and environmental factors. We aimed to design a new efficient diagnostic method, which rapidly detect causative pathogens, minimizing economic loss due to BRD and BED.
The Ultrastructure of Pyrenomonas heteromorpha comb. nov. (Cryptophyceae)

The morphology of Chroomonas heteromorpha from the Butcher collection is described. Structural features of this marine cryptophyte are characteristic of the recently established genus Pyrenomonas which has been suggested äs one of four natural pigmented genera known so far. The species is renamed accordingly: Pyrenomonas heteromorpha (Butcher) Santore comb. nov.
A case study of 10 patients administered HBOC‐201 in high doses over a prolonged period: outcomes during severe anemia when transfusion is not an option

Hemoglobin‐Based Oxygen Carriers (HBOCs) can act as an “oxygen bridge” in acute severe anemia when transfusion is indicated, but not possible. We present data on 10 Expanded Access (EA) patients treated with high cumulative doses of Hemopure (HBOC‐201), to assess the ability of HBOC‐201 to safely treat life threatening anemia in situations where high volumes of product were administered over an extended period of time.
The Effect of Frequent Clipping on Total Yield and Composition of Grasses1

A few attempts have been made to compare the quantity of grass produced when it is cut frequently and when it is allowed to mature for hay; in other words, tv approx.imate the relative yields of pasture and meadow. The results of some experiments at the Virginia Agricultural Experiment Station are presented here as a contribution to the knowledge on the subject. Before discussing the Virginia data ~he writers wish to review some . of the work done elsewhere. _At the Michigan station in I894, Crozier2 reports that one plat of orchard grass containing one-twentieth of an acre was cut seven times between April 26 and June 8. Another of the same size was cut for hay On June 8. The seven clippings gave 29 pounds of dried grass; the plat cut once produced ~oo pounds. The experiment was repeated in ~896 with the plats reversed. One cut four times between ̄ 5/Iay 4 and May 26 gave 6o.9 pounds of dry grass; the other cut only on May 26, ~2.5 pounds. A plat of timothy one by six rods in size clipped eight times between April 3° and June 24 gave ~5.76 pounds of . dry grass, while a similar plat cut on June ~4 for hay ~ave I7a pounds. The percentage of crude protein in the frequently clipped timothy was 22.62, while in that cut for hay it was only 7.8~. These results have often been quoted to prove that pastures are not as profitable as meadows. There is one serious ~ault, however, with this experiment from the standpoint of contrasting pasturing with hay making. In each instance the clipping stopped the same day that the other plat was cut for hay. ASs a ruIe grasses arid legumes that are kept grazed or cut through the spring will continue green and will grow on throughout the summer, while the aftermath on grass meadows cut for hay is slight. In an experiment reported by Jouliea one plat of mixed grasses and clovers one year old cut twice gave a yield of 5.57 tons of dry hay per acre. A similar plat cut six times made a total of only 3.59 tons per
EFFECT OF LIGHT AND TEMPERATURE ON GERMINATION OF DIMORPHIC ACHENES OF CENTAUREA SOLSTITIALIS IN CALIFORNIA

Centciurea solstitialis L. is a winter annual weed of Eurasian origin that is widespread in the western United States. Capitula produce dimorphic achenes that are dispersed at different times. Factors investigated in the laboratory that affected germination were light, temperature, achene type (plumed and nonplumed), collection date, dormancy, and storage. The presence of large interactions among the factors affecting germination was constant throughout these studies. Although some germination occurred in the dark, a daily (8 h light: 16 h dark) photoperiod of white light produced higher germination percentages in both fresh and stored achenes. Even a single brief (10-min) exposure to light was almost comparable with a daily 8-h photoperiod. Maximum germination of nearly 100% was achieved in light under constant temperatures of 10, 15, and 20 °C and alternating temperatures of 15:5 and 20:10 °C. Broadening of temperature optima related to afterripening occurred for July achenes stored for 2 months and Aug.
Ten Unsolved Questions About Neuroinflammation in Parkinson's Disease

Parkinson's disease is a progressive and debilitating disorder that has so far eluded attempts to develop disease‐modifying treatment. Both epidemiological and genetic studies support a role of neuroinflammation in the pathophysiology of Parkinson's disease. Postmortem studies and experimental analyses suggest the involvement of both innate and adaptive immunity in the degenerative process. There is also some circumstantial evidence for effects of immune therapies on the disease. In the present article, we review 10 unanswered questions related to neuroinflammatory processes in Parkinson's disease with the goal of stimulating research in the field and accelerating the clinical development of neuroprotective therapies based on anti‐inflammatory strategies. © 2020 International Parkinson and Movement Disorder Society
A hypothesized role for dysregulated bradykinin signaling in COVID‐19 respiratory complications

As of April 20, 2020, over time, the COVID‐19 pandemic has resulted in 157 970 deaths out of 2 319 066 confirmed cases, at a Case Fatality Rate of ~6.8%. With the pandemic rapidly spreading, and health delivery systems being overwhelmed, it is imperative that safe and effective pharmacotherapeutic strategies are rapidly explored to improve survival. In this paper, we use established and emerging evidence to propose a testable hypothesis that, a vicious positive feedback loop of des‐Arg(9)‐bradykinin‐ and bradykinin‐mediated inflammation → injury → inflammation, likely precipitates life threatening respiratory complications in COVID‐19. Through our hypothesis, we make the prediction that the FDA‐approved molecule, icatibant, might be able to interrupt this feedback loop and, thereby, improve the clinical outcomes. This hypothesis could lead to basic, translational, and clinical studies aimed at reducing COVID‐19 morbidity and mortality.
Distinct roles of stereociliary links in the nonlinear sound processing and noise resistance of cochlear outer hair cells

Significance Our hearing organ, the cochlea, acts as an active sound amplifier rather than a simple detector due to the action of outer hair cells (OHCs). This active sound processing by OHCs requires specific hair bundle architecture in which stereocilia are connected to each other and to the overlying tectorial membrane by nanoscale extracellular links. But it remains unclear how these stereociliary links contribute to OHC function. Using tubby mouse genetics, we dissected the role of each link in OHC function. While the links connecting stereocilia and the tectorial membrane are essential for normal OHC function, the links connecting adjacent stereocilia together are more important for preventing hearing loss due to noise stress. Outer hair cells (OHCs) play an essential role in hearing by acting as a nonlinear amplifier which helps the cochlea detect sounds with high sensitivity and accuracy. This nonlinear sound processing generates distortion products, which can be measured as distortion-product otoacoustic emissions (DPOAEs). The OHC stereocilia that respond to sound vibrations are connected by three kinds of extracellular links: tip links that connect the taller stereocilia to shorter ones and convey force to the mechanoelectrical transduction channels, tectorial membrane-attachment crowns (TM-ACs) that connect the tallest stereocilia to one another and to the overlying TM, and horizontal top connectors (HTCs) that link adjacent stereocilia. While the tip links have been extensively studied, the roles that the other two types of links play in hearing are much less clear, largely because of a lack of suitable animal models. Here, while analyzing genetic combinations of tubby mice, we encountered models missing both HTCs and TM-ACs or HTCs alone. We found that the tubby mutation causes loss of both HTCs and TM-ACs due to a mislocalization of stereocilin, which results in OHC dysfunction leading to severe hearing loss. Intriguingly, the addition of the modifier allele modifier of tubby hearing 1 in tubby mice selectively rescues the TM-ACs but not the HTCs. Hearing is significantly rescued in these mice with robust DPOAE production, indicating an essential role of the TM-ACs but not the HTCs in normal OHC function. In contrast, the HTCs are required for the resistance of hearing to damage caused by noise stress.
The Distribution and Ecology of the Interstitial Meiofauna of a Sandy Beach at Whitsand Bay, East Cornwall

The interstitial meiofauna was investigated on an exposed sand beach at Whitsand Bay, Cornwall. An intertidal transect of eight stations was sampled regularly over a period of 2 years from May 1968 to May 1970. Quantitative core samples were taken to a depth of 50 cm. Nematodes were the dominant group on the beach, forming about 50% of the meiofauna. Harpacticoid copepods were second in overall abundance. Hydrozoa, turbellaria, gastrotrichs and tardigrades were also present.