Miracle-dz/UniFAR-FTUs huggingface dataset:
Structure and Function of Human Matrix Metalloproteinases

The extracellular matrix (ECM) is a macromolecules network, in which the most abundant molecule is collagen. This protein in triple helical conformation is highly resistant to proteinases degradation, the only enzymes capable of degrading the collagen are matrix metalloproteinases (MMPs). This resistance and maintenance of collagen, and consequently of ECM, is involved in several biological processes and it must be strictly regulated by endogenous inhibitors (TIMPs). The deregulation of MMPs activity leads to development of numerous diseases. This review shows MMPs complexity.
Aminergic and Indoleamine Accumulating Neurons in the Retina of the River Lamprey (Lampetra fluviatilis)

Tissues were processed for fluorescence microscopy of biogenic amines according to the method of Falck and Hillarp. Normal animals, and animals injected with α-methylnoradrenaline or 5,6-dihydroxytryptamine were used. Catecholamine containing neurons (junctional cells) occur in the innermost rows of cell bodies of the inner nuclear layer (INL) and close to the vitreous surface. Catecholamine containing fibers occur in three layers: (1) an outer layer around the innermost perikarya of the INL, which is a condition not found in retinas of gnathostome chordates; (2) a middle layer within the outer third of the inner synaptic layer (ISL), separated from the outer layer by ganglion cell axons; (3) a sparse inner layer within the innermost third of the ISL. A few catecholamine containing fibers were seen to extend from the innermost region of the INL to the outer synaptic layer. The position of the junctional cells in the lamprey corresponds to that in gnathostome chordates, but whereas all catecholamine containing fiber layers in gnathostomes are located sclerally to the optic fiber layer and within the ISL, the middle and the inner fiber layers in the lamprey occur vitreally to the optic fiber layer. Indoleamine accumulating neurons occur in the innermost row of perikarya of the INL and close to the vitreous surface. Those of the INL send fine, varicose branches to the ISL forming a network which is somewhat denser at the inner and outer borders of the ISL than in its middle. The indoleamine accumulating terminals do not ramify within the INL in contrast to the catecholamine containing terminals.
Late Chronotype is Associated with Adolescent Asthma: Assessment Using the Korean-Version MCTQ

Objectives: In the study, we explored whether sleep chronotypes are associated with asthma in adolescents. Methods: We analyzed 24,655 physician-diagnosed adolescent asthmatic patients and 253,775 non-asthmatic adolescent patients from the Korea Youth Risk Behavior Web-based Survey (KYRBWS). Socioeconomic factors, health behaviors factors, psychological factors, and sleep parameters were assessed using the Munich Chronotype Questionnaire (MCTQ). Logistic regression after adjusting for multiple confounders was used to explore the association between sleep chronotype and asthma. Results: The asthmatic adolescent group slept less (≤5 h: 24.3% vs. 23.2%) than the non-asthmatic adolescent group. Mean sleep duration (430.6 ± 95.6 vs. 433.5 ± 93.6 min), midpoint of sleep on school-free days (MSF; 255.9 ± 75.9 vs. 258.3 ± 73.6 min), midpoint of sleep on school days (MSW; 199.1 ± 49.1 vs. 200.1 ± 48.4 min), sleep duration on school days (SDW; 398.2 ± 98.1 vs. 400.2 ± 96.8 min), and sleep duration on school-free days (SDF; 511.8 ± 151.9 vs. 516.7 ± 147.2 min) were significantly lower, sleep satisfaction was significantly poorer (low sleep satisfaction: 41.3% vs. 37.5%), and late chronotype was significantly higher in the asthmatic adolescent (21.1% vs. 20.0%). After adjusting for multiple confounders, late chronotype was significantly associated with an increased frequency of adolescent asthma (OR 1.05; 95% CI 1.01–1.09) compared to intermediate chronotypes. Conclusions: Although our study shows a very modest association (OR of 1.05 in the fully adjusted model), we show that the late sleep chronotype is associated with asthma in adolescents in South Korea.
A Comparison of Kinetic and Kinematic Variables During the Midthigh Pull and Countermovement Shrug, Across Loads.

Meechan, D, Suchomel, TJ, McMahon, JJ, and Comfort, P. A comparison of kinetic and kinematic variables during the midthigh pull and countermovement shrug, across loads. J Strength Cond Res XX(X): 000-000, 2020-This study compared kinetic and kinematic variables during the midthigh pull (MTP) and countermovement shrug (CMS). Eighteen men (age: 29.43 ± 3.95 years, height: 1.77 ± 0.08 m, body mass: 84.65 ± 18.79 kg, and 1 repetition maximum [1RM] power clean: 1.02 ± 0.18 kg·kg) performed the MTP and CMS at intensities of 40, 60, 80, 100, 120, and 140% 1RM, in a progressive manner. Peak force (PF), mean force (MF), peak velocity, peak barbell velocity (BV), peak power, (PP), mean power (MP), and net impulse were calculated from force-time data during the propulsion phase. During the CMS, PF and MF were maximized at 140% 1RM and was significantly greater than the MTP at all loads (p ≤ 0.001, Hedges g = 0.66-0.90); p < 0.001, g = 0.74-0.99, respectively). Peak velocity and BV were significantly and meaningfully greater during the CMS compared with the MTP across all loads (p < 0.001, g = 1.83-2.85; p < 0.001, g = 1.73-2.30, respectively). Similarly, there was a significantly and meaningfully greater PP and MP during the CMS, across all loads, compared with the MTP (p < 0.001, g = 1.45-2.22; p < 0.001, g = 1.52-1.92). Impulse during the CMS was also significantly greater across all loads (p < 0.001, g = 1.20-1.66) compared with the MTP. Results of this study demonstrate that the CMS may be a more advantageous exercise to perform to enhance force-time characteristics when compared with the MTP, due to the greater kinetics and kinematic values observed.
Study of Quantitative Trait Loci (QTLs) Associated with Allelopathic Trait in Rice

In rice there are few genetic studies reported for allelopathy traits, which signify the ability of plants to inhibit or stimulate growth of other plants in the environment, by exuding chemicals. QTL analysis for allelopathic traits were conducted with 98 F8 RILs developed from the cross between the high allelopathic parents of ‘Sathi’ and non-allelopathic parents of ‘Nong-an’. The performance of allelopathic traits were evaluated with inhibition rate on root length, shoot length, total length, root weight, shoot weight, and total weight of lettuce as a receiver plant. With 785 polymorphic DNA markers, we constructed a linkage map showing a total of 2489.75 cM genetic length and 3.17 cM of average genetic distance between each adjacent marker. QTL analysis detected on QTL regions on chromosome 8 responsible for the inhibition of shoot length and inhibition of total length. The qISL-8 explained 20.38% of the phenotypic variation for the inhibition on the shoot length. The qITL-8 explained 14.93% of the phenotypic variation for the inhibition on total length. The physical distance of the detected QTL region was 194 Kbp where 31 genes are located.
Strigolactone and Karrikin Signaling Pathways Elicit Ubiquitination and Proteolysis of SMXL2 to Regulate Hypocotyl Elongation in Arabidopsis[OPEN]

Strigolactone and karrikin signaling pathways trigger polyubiquitination and degradation of SMXL2 to regulate hypocotyl elongation and gene expression in Arabidopsis. Strigolactones (SLs) and karrikins (KARs) are related butenolide signaling molecules that control plant development. In Arabidopsis (Arabidopsis thaliana), they are recognized separately by two closely related receptors but use the same F-box protein MORE AXILLARY GROWTH2 (MAX2) for signal transduction, targeting different members of the SMAX1-LIKE (SMXL) family of transcriptional repressors for degradation. Both signals inhibit hypocotyl elongation in seedlings, raising the question of whether signaling is convergent or parallel. Here, we show that synthetic SL analog GR244DO enhanced the interaction between the SL receptor DWARF14 (D14) and SMXL2, while the KAR surrogate GR24ent-5DS induced association of the KAR receptor KARRIKIN INSENSITIVE2 (KAI2) with SMAX1 and SMXL2. Both signals trigger polyubiquitination and degradation of SMXL2, with GR244DO dependent on D14 and GR24ent-5DS dependent mainly on KAI2. SMXL2 is critical for hypocotyl responses to GR244DO and functions redundantly with SMAX1 in hypocotyl response to GR24ent-5DS. Furthermore, GR244DO induced response of D14-LIKE2 and KAR-UP F-BOX1 through SMXL2, whereas GR24ent-5DS induced expression of these genes via both SMAX1 and SMXL2. These findings demonstrate that both SLs and KARs could trigger polyubiquitination and degradation of SMXL2, thus uncovering an unexpected but important convergent pathway in SL- and KAR-regulated gene expression and hypocotyl elongation.
Can Endothelial Glycocalyx Be a Major Morphological Substrate in Pre-Eclampsia?

Today pre-eclampsia (PE) is considered as a disease of various theories; still all of them agree that endothelial dysfunction is the leading pathogenic factor. Endothelial dysfunction is a sequence of permanent immune activation, resulting in the change of both the phenotype and the functions of an endothelial cell and of the extracellular layer associated with the cell membrane—endothelial glycocalyx (eGC). Numerous studies demonstrate that eGC mediates and regulates the key functions of endothelial cells including regulation of vascular tone and thromboresistance; and these functions are disrupted during PE. Taking into account that eGC and its components undergo alterations under pathological conditions leading to endothelial activation, it is supposed that eGC plays a certain role in pathogenesis of PE. Envisaging the eGC damage as a key factor of PE, might be a new approach to prevention, treatment, and rehabilitation of patients with PE. This approach could include the development of drugs protecting eGC and promoting regeneration of this structure. Since the issue of PE is far from being solved, any effort in this direction might be valuable.
Imaging Accuracy in Preoperative Staging of T3-T4 Laryngeal Cancers

Background: Preoperative imaging impacts treatment planning and prognosis in laryngeal cancers. We investigated the accuracy of standard computed tomography (CT) in evaluating tumor invasions at critical glottic areas. Methods: CT scans of glottic cancers treated by partial or total laryngectomy between Jan 2015 and Aug 2019 were reviewed to assess levels of tumor invasion at critical glottic subsites. CT accuracy in the identification of tumor extensions was determined against the gold standard of histopathological analysis of surgical samples. Results: This study included 64 patients. In the anterior commissure, CT showed high rates of false positives at all levels (sensitivity 56.2–70%, specificity 87.8–92.3%); in the anterior vocal fold, it overestimated the deep invasion (19.5% specificity, 90.3% sensitivity), while it underestimated the extralaryngeal spread (63.6% sensitivity, 98.1% specificity). In the posterior paraglottic space (pPGS), false negative results were more frequent for superficial extensions (25% sensitivity, 95.8% specificity) and deep invasions (58.8% sensitivity, 82.3% specificity). Shorter disease-specific and disease-free survivals were associated with pStage IV (p: 0.045 and 0.008) and with the pathological involvement of pPGS (p: 0.045 and 0.015). Conclusions: Negative prognostic correlation of pPGS involvement was confirmed on histopathological data. CT staging did not provide a satisfactory prognostic stratification and should be complemented with magnetic resonance imaging.
Cinnamon (Cinnamomum zeylanicum) Oil as a Potential Alternative to Antibiotics in Poultry

The removal of antibiotic growth promoters (AGPs) as feed additives in poultry nutrition from the market in many countries has compelled researchers to find unconventional and safe alternatives to AGPs. Probiotics, prebiotics, enzymes, organic acids, herbs, immune-stimulants and essential oils (EO) have been investigated as feed additives in poultry production. Cinnamon (Cinnamomum zeylanicum), one of the oldest medicinal plants and widely used around the world, can be used in poultry rations in the form of powder or essential oil. Essential oils produced from aromatic plants have become more interesting owing to their potential effects as hypocholesterolaemic agents, antioxidants, antimicrobials, antifungals and stimulants of digestive enzymes. The potential insecticidal and antimicrobial activities of EO against pathogens that cause spoilage in agriculture crops and human diseases might be attributed mainly to the high content of volatile components (mainly cinnamaldehyde, eugenol and carvacrol) in cinnamon oil. The present review focuses on the effects of cinnamon oil as a feed additive on poultry performance, carcass traits, meat quality, hypocholesterolaemic impact, antioxidant activity, immunity and microbiological aspects.
Effect of a 12‐week endurance training program on force transfer and membrane integrity proteins in lean, obese, and type 2 diabetic subjects

The mechanisms accounting for the loss of muscle function with obesity and type 2 diabetes are likely the result of a combination of neural and muscular factors. One muscular factor that is important, yet has received little attention, is the protein machinery involved in longitudinal and lateral force transmission. The purpose of this study was to compare the levels of force transfer and membrane integrity proteins before and after a 12‐week endurance training program in lean, obese, and obese type 2 diabetic adults. Nineteen sedentary subjects (male = 8 and female = 11) were divided into three groups: Lean (n = 7; 50.3 ± 4.1 y; 69.1 ± 7.2 kg); Obese (n = 6; 49.8 ± 4.1 y; 92.9 ± 19.5 kg); and Obese with type 2 diabetes (n = 6; 51.5 ± 7.9 years; 88.9 ± 15.1 kg). Participants trained 150 min/week between 55% and 75% of VO2max for 12 weeks. Skeletal muscle biopsies were taken before and after the training intervention. Baseline dystrophin and muscle LIM protein levels were higher (~50% p < .01) in lean compared to obese and type 2 diabetic adults, while the protein levels of the remaining force transfer and membrane integrity proteins were similar between groups. After training, obese individuals decreased (−53%; p < .01) the levels of the muscle ankyrin repeat protein and lean individuals decreased dystrophin levels (−45%; p = .01), while the levels of the remaining force transfer and membrane integrity proteins were not affected by training. These results suggest that there are modest changes to force transfer and membrane integrity proteins in middle‐aged individuals as a result of 12 weeks of lifestyle and training interventions.
Disparities in the Deaths of Despair by Occupation, Massachusetts, 2000-2015.

OBJECTIVE To explore mortality rates and trends according to the occupation of workers who died from the deaths of despair (DoD). METHODS Death certificates for deaths due to poisonings (including opioid-related overdoses), suicides, and alcoholic liver disease occurring in Massachusetts from 2000 to 2015 were collected and coded according to the occupation of the decedent. Mortality rates and trends in mortality were calculated for each occupation. RESULTS DoDs increased by more than 50% between 2000-2004 and 2011-2015. There were substantial differences in mortality rates and trends according to occupation. Blue collar workers were at a particularly elevated risk for DoD and had elevated trends for these deaths, notably: construction and farming, fishing, and forestry workers. CONCLUSIONS Interventions should be targeted to occupations with elevated mortality rates and trends. Occupational risk factors that may contribute to these disparities should be explored.
Covid-19: Remdesivir is helpful but not a wonder drug, say researchers

Antiviral drug remdesivir helps patients hospitalised with covid-19 recover faster and may also reduce mortality, according to the US National Institutes of Health (NIH). The drug—developed by US pharmaceutical company Gilead—is being tested through a randomised, controlled trial involving 1063 patients from several countries including the US, UK, and Singapore. The study began in February. Currently, no official results have been published, however the NIH said that the independent data and safety monitoring board overseeing the trial met on 27 April to review data and shared their interim analysis with the study team. They reported that the preliminary data suggests remdesivir was better than placebo in terms of time to recovery, the primary endpoint defined as being well enough for hospital discharge or returning to normal activity level. The team carrying …
TOWARD AN ASSESSMENT ON THE TAXONOMY OF DINOFLAGELLATES THAT PRODUCE CALCAREOUS CYSTS (CALCIODINELLOIDEAE, DINOPHYCEAE): A MORPHOLOGICAL AND MOLECULAR APPROACH

In recent years an unified classification system for both fossil cysts and extant dinoflagellate species has been proposed. This classification has prompted investigations aimed at testing the phylogenetic validity of the distinctive morphological characters of both vegetative cells and cysts. We have focused on a group of dinoflagellates that produce calcareous resting cysts, which are abundant in marine neritic and oceanic waters and form wide fossil deposits. Extant species are included in the genera Scrippsiella, Ensiculifera, and “Pentapharsodinium” (subfamily Calciodinelloideae), which are distinguished by the number and/or shape of the cingular plates of their planktonic vegetative stages. On the other hand, the classification of fossil cysts is based on the morphology of the calcareous covering and on the orientation of crystals. In this study we combine the information derived from morphological traits of both motile stages and cysts with that obtained from nucleotide sequence analysis of the ribosomal DNA internal transcribed spacers (ITS). We also describe the vegetative cell produced by the calcareous cyst Calcigonellum infula and a new variety, Scrippsiella trochoidea var. aciculifera var. nov. Molecular analyses confirm the monophyletic origin of the genus Scrippsiella, whereas the “Pentapharsodinium” and Ensiculifera species are grouped together in another monophyletic cluster. The coupled morphological and molecular approach supports the taxonomic value of some of the characters of the planktonic stage, such as the cingular plate number. On the other hand, it questions the validity of other morphological characters of both vegetative and encysted stages. Our data provide a phylogenetic classification of these dinoflagellates; however, they also open a debate that would imply a redefinition of the characters to be used for the circumscription of the subfamily Calciodinelloideae.
In Vitro Cytotoxicity Effects of Zinc Oxide Nanoparticles on Spermatogonia Cells

Zinc Oxide Nanoparticles (ZnO NPs) are a type of metal oxide nanoparticle with an extensive use in biomedicine. Several studies have focused on the biosafety of ZnO NPs, since their size and surface area favor entrance and accumulation in the body, which can induce toxic effects. In previous studies, ZnO NPs have been identified as a dose- and time-dependent cytotoxic inducer in testis and male germ cells. However, the consequences for the first cell stage of spermatogenesis, spermatogonia, have never been evaluated. Therefore, the aim of the present work is to evaluate in vitro the cytotoxic effects of ZnO NPs in spermatogonia cells, focusing on changes in cytoskeleton and nucleoskeleton. For that purpose, GC-1 cell line derived from mouse testes was selected as a model of spermatogenesis. These cells were treated with different doses of ZnO NPs for 6 h and 12 h. The impact of GC-1 cells exposure to ZnO NPs on cell viability, cell damage, and cytoskeleton and nucleoskeleton dynamics was assessed. Our results clearly indicate that higher concentrations of ZnO NPs have a cytotoxic effect in GC-1 cells, leading to an increase of intracellular Reactive Oxygen Species (ROS) levels, DNA damage, cytoskeleton and nucleoskeleton dynamics alterations, and consequently cell death. In conclusion, it is here reported for the first time that ZnO NPs induce cytotoxic effects, including changes in cytoskeleton and nucleoskeleton in mouse spermatogonia cells, which may compromise the progression of spermatogenesis in a time- and dose-dependent manner.
Clinical Characteristics of 28 Patients with Diabetes and COVID-19 in Wuhan, China

ABSTRACT Objective: Previous studies on coronavirus disease 2019 (COVID-19) were based on information from the general population. We aimed to further clarify the clinical characteristics of diabetes with COVID-19. Methods: Twenty-eight patients with diabetes and COVID-19 were enrolled from January 29, 2020, to February 10, 2020, with a final follow-up on February 22, 2020. Epidemiologic, demographic, clinical, laboratory, treatment, and outcome data were analyzed. Results: The average age of the 28 patients was 68.6±9.0 years. Most (75%) patients were male. Only 39.3% of the patients had a clear exposure of COVID-19. Fever (92.9%), dry cough (82.1%), and fatigue (64.3%) were the most common symptoms, followed by dyspnea (57.1%), anorexia (57.1%), diarrhea (42.9%), expectoration (25.0%), and nausea (21.4%). Fourteen patients were admitted to the intensive care unit (ICU). The hemoglobin A1c level was similar between ICU and non-ICU patients. ICU patients had a higher respiratory rate, higher levels of random blood glucose, aspartate transaminase, bilirubin, creatine, N-terminal prohormone of brain natriuretic peptide, troponin I, D-dimers, procalcitonin, C-reactive protein, ferritin, interleukin (IL)-2R, IL-6, and IL-8 than non-ICU patients. Eleven of 14 ICU patients received noninvasive ventilation and 7 patients received invasive mechanical ventilation. Twelve patients died in the ICU group and no patients died in the non-ICU group. Conclusion: ICU cases showed higher rates of organ failure and mortality than non-ICU cases. The poor outcomes of patients with diabetes and COVID-19 indicated that more supervision is required in these patients. Abbreviations: COVID-19 = coronavirus disease 2019; ICU = intensive care unit; MERS-CoV = middle East respiratory syndrome-related coronavirus; 2019- nCoV = 2019 novel coronavirus; NT-proBNP = N-terminal prohormone of brain natriuretic peptide; SARS-CoV = severe acute respiratory syndrome-related coronavirus
Diversity of coprophilous species of Panaeolus (Psathyrellaceae, Agaricales) from Punjab, India

Kaur A, Atri NS, Kaur M. 2014. Diversity of coprophilous species of Panaeolus (Psathyrellaceae, Agaricales) from Punjab, India. Biodiversitas 15: 115-130. An account of 16 Panaeolus species collected from a variety of coprophilous habitats of Punjab state in India is described and discussed. Out of these, P. alcidis, P. castaneifolius, P. papilionaceus var. parvisporus, P. tropicalis and P. venezolanus are new records for India while P. acuminatus, P. antillarum, P. ater, P. solidipes, and P. sphinctrinus are new reports for north India. Panaeolus subbalteatus and P. cyanescens are new records for Punjab state. A key to the taxa explored is also provided.Key words: Dung, epithelial pileus cuticle, systematics, taxonomy.