Miracle-dz/UniFAR-FTUs huggingface dataset:
Elucidating the competition between heterotrophic denitrification and DNRA using the resource-ratio theory

Denitrification and dissimilatory nitrate reduction to ammonium (DNRA) are two microbial processes competing for nitrate and organic carbon (COD). Their competition has great implications for nitrogen loss, conservation, and greenhouse gas emissions. Nevertheless, a comprehensive and mechanistic understanding of the governing factors for this competition is still lacking. We applied the resource-ratio theory and verified it with competition experiments of denitrification and DNRA reported in the literature. Based on this theory, we revealed how COD/N ratio, influent resource concentrations, dilution rate, and stoichiometric and kinetic parameters individually and collectively define the boundaries for different competition outcomes in continuous cultures. The influent COD/N ratio alone did not drive competition outcome as the boundary COD/N ratio for different competition outcomes changed significantly with influent resource concentrations. The stoichiometry of the two processes was determinative for the boundaries, whereas the affinity for the resources (Ks), maximum specific growth rate (μmax) of the two species and the dilution rate had significant impacts as well but mainly at low influent resource concentrations (e.g., <100 μM nitrate). The proposed approach allows for a more comprehensive understanding of the parameters controlling microbial selection and explains apparently conflicting experimental results. The results from this model also provide testable hypotheses and tools for understanding and managing the fate of nitrate in ecosystems and for other species that compete for two resources.
Lethal and sublethal effects of Embelia ribes and two commercial pesticides on a generalist predator

Even as new substances show promise as biopesticides for controlling pests due to their natural properties and high effectiveness in inhibiting pests, their side effects on non‐target organisms must nevertheless be evaluated before they can be included into integrated pest management systems. In this study, a crude extract from dried leaves of Embelia ribes was evaluated together with two commercial pesticides: azadirachtin (a natural product) and amitraz (a synthetic acaricide). We examined both lethal and sublethal effects on the predatory potential of the lynx spider Oxyopes lineatipes, which is among the most dominant predator in tropical agricultural agroecosystems. We found that the spider's mortality increased with rising concentration of both commercial products, azadirachtin and amitraz, but not with rising concentration of the extracts from E. ribes. The greatest mortality occurred when amitraz was used. That material caused almost 100% spider mortality in the doses recommended for field spraying. Azadirachtin significantly reduced the rate at which O. lineatipes captured prey, while there was no significant difference in capture rates among spiders exposed to a control treatment and the E. ribes treatment. Considering its absence of unfavourable impacts on O. lineatipes in terms of mortality and predatory activity, the plant extract from E. ribes shows promise as a new biopesticide material. In contrast, azadirachtin, which has been considered as safe for non‐target organisms, exhibited slight lethal effect only in higher concentrations and strong sublethal effect by reducing spiders’ predation rate.
COVID-19 Mediated by Basigin Can Affect Male and Female Fertility

Coronavirus disease 2019 (COVID-19) prevalence has caused many problems in society and disrupted many regular aspects of life. COVID-19 contains major structural proteins that among them, S protein can promote fusion of the viral and cellular membranes and facilitate the entry of coronavirus into the host cells. Basigin (BSG) is one of the most important receptors for COVID-19 that mediates its entry to host cells. Also, Basi- gin has an important role in male and female reproduction. Basigin is expressed in the uterus and plays an important role during embryo implantation and needed for successful implantation. Therefore, disruption or inhibition of Basigin causes to a weakness in embryo implantation. Therefore, if a woman or a man is infected with COVID-19, it is recommended that they do not attempt to conception until their treatment is complete. It is also recommended tests for COVID-19 be performed on infertile couples before using assisted reproductive technology (ART).
Estimation of the relationship between the persistent decrease of the suicide rate and the changes in sociodemographic composition in Hungary between 1990 and 2011

From the end of the 1980s, the Hungarian suicide rate, which had been until that point the highest in the world for decades, has decreased drastically. The reason behind this decrease was probably due to the changes in numerous and often interlinked risk factors. Studies on this topic have mostly ignored to interrogate to what extent the change of the population composition, for example the improvement of educational level, contributed to the decrease of the rate in the given period? Our aim was to assess the contribution of changes in some sociodemographic factors to the decrease of the suicide rate in Hungary. During the analysis, data from 1990 were compared with data from 2011. For the statistical calculations, the method of “Standardization and Decomposition (SDA)” was used, which according to our best knowledge, has not yet been applied in Hungarian suicide studies. The results show that the improvement of educational level helped to decrease the rate for men by about a third, while for women only by about a tenth. However, the benefit of the improvement in educational attainment during the period investigated was significantly offset by the changes primarily in marital status (the ratios of unmarried and divorced subjects increased for both genders) and in age distribution (the ratio of the elderly persons increased for both genders). The results of our study emphasise the inverse relationship between suicide and educational level and support the hypothesis that we can regard educational policy as indirect health policy.
Methods for evaluating penetration of drug into the skin: A review

Skin being the largest organ of the human body plays a very important role in the permeation and penetration of the drug. In addition, the transdermal drug delivery system (TDDS) plays a major role in managing dermal infections and attaining sustained plasma drug concentration. Thus, evaluation of percutaneous penetration of the drug through the skin is important in developing TDDS for human use.
Type 2 Diabetes and COVID-19–Related Mortality in the Critical Care Setting: A National Cohort Study in England, March–July 2020

OBJECTIVE To describe the relationship between type 2 diabetes and all-cause mortality among adults with coronavirus disease 2019 (COVID-19) in the critical care setting. RESEARCH DESIGN AND METHODS This was a nationwide retrospective cohort study in people admitted to hospital in England with COVID-19 requiring admission to a high dependency unit (HDU) or intensive care unit (ICU) between 1 March 2020 and 27 July 2020. Cox proportional hazards models were used to estimate 30-day in-hospital all-cause mortality associated with type 2 diabetes, with adjustment for age, sex, ethnicity, obesity, and other major comorbidities (chronic respiratory disease, asthma, chronic heart disease, hypertension, immunosuppression, chronic neurological disease, chronic renal disease, and chronic liver disease). RESULTS A total of 19,256 COVID-19–related HDU and ICU admissions were included in the primary analysis, including 13,809 HDU (mean age 70 years) and 5,447 ICU (mean age 58 years) admissions. Of those admitted, 3,524 (18.3%) had type 2 diabetes and 5,077 (26.4%) died during the study period. Patients with type 2 diabetes were at increased risk of death (adjusted hazard ratio [aHR] 1.23 [95% CI 1.14, 1.32]), and this result was consistent in HDU and ICU subsets. The relative mortality risk associated with type 2 diabetes decreased with higher age (age 18–49 years aHR 1.50 [95% CI 1.05, 2.15], age 50–64 years 1.29 [1.10, 1.51], and age ≥65 years 1.18 [1.09, 1.29]; P value for age–type 2 diabetes interaction = 0.002). CONCLUSIONS Type 2 diabetes may be an independent prognostic factor for survival in people with severe COVID-19 requiring critical care treatment, and in this setting the risk increase associated with type 2 diabetes is greatest in younger people.
Multi-Targeted Metabolic Profiling of Carotenoids, Phenolic Compounds and Primary Metabolites in Goji (Lycium spp.) Berry and Tomato (Solanum lycopersicum) Reveals Inter and Intra Genus Biomarkers

Metabolic profile is a key component of fruit quality, which is a challenge to study due to great compound diversity, especially in species with high nutritional value. This study presents optimized analytical methods for metabolic profiling in the fruits of three Solanaceae species: Lycium barbarum, Lycium chinense and Solanum lycopersicum. It includes the most important chemical classes involved in nutrition and taste, i.e., carotenoids, phenolic compounds and primary compounds. Emphasis has been placed on the systematic achievement of good extraction yields, sample stability, and high response linearity using common LC-ESI-TQ-MS and GC-EI-MS apparatuses. A set of 13 carotenoids, 46 phenolic compounds and 67 primary compounds were profiled in fruit samples. Chemometrics revealed metabolic markers discriminating Lycium and Solanum fruits but also Lycium barbarum and Lycium chinense fruits and the effect of the crop environment. Typical tomato markers were found to be lycopene, carotene, glutamate and GABA, while lycibarbarphenylpropanoids and zeaxanthin esters characterized goji (Lycium spp.) fruits. Among the compounds discriminating the Lycium species, reported here for the first time to our knowledge, chlorogenic acids, asparagine and quinic acid were more abundant in Lycium chinense, whereas Lycium barbarum accumulated more lycibarbarphenylpropanoids A-B, coumaric acid, fructose and glucose.
Exposure to Parental Aggression and the Development of Psychopathology in Young Children: The Mediating Role of Early Dissociative Symptoms

Exposure to child-directed parental aggression in early life has been found to increase the risk of later psychopathological symptoms among children and adolescents. However, little is known about intermediate phenotypes and the developmental progression of symptoms, especially across the transition to grade school. Using prospectively collected longitudinal data from a large sample of children enrolled in the Family Life Project (n = 1,166, 49.7% female), the current study examined the mediating role of early dissociative symptoms in the relations between parental aggression and children’s psychopathological symptoms. Children’s exposure to parental aggression and their dissociative symptoms before school entry were assessed based on primary caregivers’ reports. Teacher ratings of children’s internalizing and externalizing symptoms were collected in pre-kindergarten as well as in the 1st, 3rd, and 5th grades. Results showed that dissociative symptoms before school entry partially mediated the association between parental aggression and persistent externalizing symptoms in school years. However, no significant associations were found between parental aggression or dissociative symptoms and internalizing symptoms. Findings suggest that dissociative symptoms manifested early in life serve as a mediating mechanism and indicator of risk for persistent impulsivity and behavioral problems. Thus, these symptoms could be an important target of preventive services provided to children with adverse experiences in their families.
Measuring Exoplanetary Radii Using Transit Photometry

The goal of this study was to measure the radii and constrain the orbital periods of three hot Jupiter exoplanets: HAT-P-25b, HAT-P-9b, and HAT-P-30b. Raw images of the host stars were acquired from the Apache Point Observatory in New Mexico. A data processing pipeline utilizing the Python programming language was used to convert the raw data images into calibrated pixels and transit light curve graphs. The graphs of HAT-P-25b and HAT-P-30b were fit with multiple light curve models, which varied based on a given range of radius and time of mid-transit parameters within the code. The data of HAT-P-9b were not further analyzed due to a non-detection in the data. We hypothesized that the differences between the dates the exoplanets were discovered and the dates on which we observed them have no effect on the radii of the exoplanets and their times of mid-transit. Chi-square Goodness of Fit tests were performed on all light curve models to isolate the chi-square value closest to 1.0. Chi-square maps were used to estimate the 1σ error bars for all light curve calculations. A significant shift in mid-transit time (-0.41 ± 0.31 hours from expected value) was detected for HAT-P-25, and a significant difference (0.04 ± 0.0020) from the literature value was calculated for the normalized radius (Rp/R*) of HAT-P-30b. These findings stress the importance of updating exoplanetary measurements and will help scientists obtain more accurate knowledge about the characteristics of these exoplanets and their evolution over time.
Insomnia and Daily Function in Older Adults With Asthma.

The current study examined the prevalence of insomnia and its relationship with daily function in older adults with asthma. Data on 278 older adults with asthma (aged ≥60 years) from the 2005-2008 National Health and Nutrition Examination Survey were analyzed. Insomnia was present in 40% of the study sample and was associated with a greater number of activities of daily living (ADL) and instrumental ADL (IADL) limitations. In multivariate analyses accounting for covariates including depressive symptoms, insomnia was not associated with having at least two ADL/IADL limitations. However, those with co-occurring insomnia and depressive symptoms were more likely to have at least two ADL/IADL limitations compared to those with either condition singly. Insomnia in the presence of depressive symptoms may impede one's ability to perform ADL/IADL. Current findings suggest that assessment and treatment of insomnia and depression in older adults with asthma may be important for maintaining active, independent living. [Journal of Gerontological Nursing, 46(11), 28-36. ].
Comparative Analysis of the Lignification Process of Two Bamboo Shoots Stored at Room Temperature

Two types of bamboo shoots, high bamboo (Phyllostachys prominens) shoots (HBSes) and moso bamboo (Phyllostachys edulis) shoots (MBSes), underwent a fast post-harvest lignification process under room temperature storage. To explore the mechanism of lignification in two types of bamboo shoots after post-harvest during room temperature storage, the measurement of cell wall polymers (lignin and cellulose) and enzyme activities of phenylalanine ammonialyase (PAL) and peroxidase (POD), and relative expression of related transcription networks factors (TFs) were performed. The results suggested that the lignification process in HBSes is faster than that in MBSes because of incremental increase in lignin and cellulose contents within 6 days and the shorter shelf-life. Additionally, compared with the expression pattern of lignification-related TFs and correlation analysis of lignin and cellulose contents, MYB20, MYB43, MYB85 could function positively in the lignification process of two types of bamboo shoots. A negative regulator, KNAT7, could negatively regulate the lignin biosynthesis in two types of bamboo shoots. In addition, MYB63 could function positively in HBSes, and NST1 could function negatively in MBSes. Notably, MYB42 may function differently in the two types of bamboo shoots, that is, a positive regulator in HBSes, but a negative regulator in MBSes. Transcription networks provide a comprehensive analysis to explore the mechanism of lignification in two types of bamboo shoots after post-harvest during room temperature storage. These results suggest that the lignification of bamboo shoots was mainly due to the increased activity of POD, higher expression levels of MYB20, MYB43, MYB63, and MYB85 genes, and lower expression levels of KNAT7 and NST1 genes, and the lignification process of HBSes and MBSes had significant differences.
Muscodor camphora, a new endophytic species from Cinnamomum camphora

The current study describes a new endophytic species Muscodor camphora from internal stem tissue of Cinnamomum camphora. The fungus produces white hairy colonies over potato dextrose agar medium with sterile ropy mycelial filaments and hyphal coils. Scanning electron micrographs exhibited that they form dense hyphal web, which club to form rope-like mycelium and coils. Phylogenetic, genetic distance and haplotype analyses based on internal transcribed spacer confirm its identity as a new species in the genus Muscodor. The fungus also produces a unique mixture of 18 volatile organic compounds predominantly producing tetracontane, 4-octadecylmorpholine, N, Ndimethyl-1-pentadecanamine and cis-9-hexadecenal. These volatiles exhibited synergistic inhibitory effect over a tested spectrum of pathogenic microorganisms. Out of 15 tested pathogenic microorganisms, the volatile organic compounds inhibit the growth of fungal pathogens by 13–70 %, while considerable inhibition was observed against Candida, Staphylococcus and Pseudomonas species.
Heads you win, tails you lose: Life‐history traits predict invasion and extinction risk of the world's freshwater fishes

Freshwater fishes have the distinction of being both a highly imperilled taxonomic group as well as one that has produced many invasive species with widespread ecological impacts. Faced with the difficult task of identifying those species with the greatest need for management action, ecologists have turned to using predictive suites of ecological and life-history traits to provide reasonable estimates of fish invasion and extinction risk. Whether traits associated with invasiveness are the inverse of those associated with imperillment, known as the ‘two-sides-of-the-same-coin’ hypothesis, remains unclear. A global trait analysis (including maximum total body size, longevity, size at maturation, age at maturation, fecundity and egg size) for 6293 freshwater fishes was conducted to examine the trait correlates of species proneness to invasion or extinction. A meta-analytical procedure was deployed using univariate and multivariate trait analyses that accounted for the effects of shared phylogeny. Mean trait differences (measured as Hedges' d effect size) were found between invasive and threatened species when compared with native species, thus supporting the two-sides-of-the-same-coin hypothesis for freshwater fish. Invasive species were characterized by larger body size, greater longevity, delayed maturation and higher fecundity than threatened species. Furthermore, invasive species were found to display greater trait variability compared with threatened species, suggesting that different traits may be selected at different stages of the invasion process (from pathway entrainment to establishment) whereas more specific trait combinations may predispose species to higher extinction risk. The present study demonstrated a strong trait basis to global-scale invasion risk and extinction vulnerability for freshwater fishes. Given that both time and resources are too limited for detailed species-by-species assessments, the results suggest that trait correlates provide a reasonable estimate of invasion and extinction risk that can inform more targeted and proactive conservation strategies.
Associations of Major Dietary Patterns and Dietary Diversity Score with Semen Parameters: A Cross-Sectional Study in Iranian Infertile Men

Background This cross-sectional study pointed to assess the relationship between major dietary patterns and dietary diversity score with semen parameters, in infertile Iranian males. Materials and Methods In this cross-sectional study, 260 infertile men (18-55 years old) who met the inclusion criteria, entered the study. Four Semen parameters, namely sperm concentration (SC), total sperm movement (TSM), normal sperm morphology (NSM) and sperm volume were considered according to spermogram. A 168-item food frequency questionnaire (FFQ) was used to collect dietary intakes and calculate dietary diversity score. Factor analy- sis was used to extract dietary patterns. Results The following four factors were extracted: “traditional pattern”, “prudent pattern”, “vegetable-based pattern” and “mixed pattern”. After adjusting potential confounders, those in the highest quartile of the traditional pattern had 83% less odds for abnormal concentration, compared with the first quartile (OR=0.17, 95% CI: 0.04-00.73); however, subjects in the highest quartile of this pattern had 2.69 fold higher odds for abnormal sperm volume as compared with those of the first quartile (95%Cl: 1.06-6.82). Men in the second quartile of prudent pattern had 4.36 higher odds of an abnormal sperm volume in comparison to the reference category (95%CI: 1.75-10.86), after considering potential confounders. With regard to mixed pattern, men in the second, third and fourth quartile of this pattern had respectively 85 (5%Cl: 0.03-0.76,), 86 (95%Cl: 0.02-0.75) and 83 % (95%Cl: 0.034-0.9) less odds of abnormal concentration, compared with the first quartile. Additionally, no significant association was found between dietary diversity score and sperm quality parameters. Conclusion Higher intake of the traditional diet was linked to lower abnormal semen concentration and poorer sperm volume. Also, the mixed diet was associated with reduced prevalence of abnormal semen concentration.
Molecular characterization of inositol pentakisphosphate 2-kinase (GmlPk1) from soybean and its expression pattern in the developing seeds

The principal storage compound of seeds, phytic acid, poses several problems for agriculture due to its antinutritional effects making the development of low phytate crops a prime priority in research. Soybean, with its high nutritive value, wide acceptability and varied usage, but possessing high levels of phytate can be a major target of low phytate research. To this effect, Inositol pentakisphosphate 2-kinase (IPK1) can prove to be critical player given its key role in catalyzing the terminal step of phytate biosynthesis. In this paper, we report the expression profile of GmIPK1 across different tissues and seed development stages, cloning of 1371 bp nucleotide sequence representing the full length cDNA of GmIPK1 and in silico analysis for characterization. Amino acid sequence of GmIPK1 showed much similarity with that of Phaseolus vulgaris and Cicer arietinum. It also showed the presence of the characteristic Ins_P5_2-kinase domain required for catalytic activity. Thus this study provides an initial idea on the molecular characterization of GmIPK1 enzyme for its further in detailed study and subsequent utilization in generating low phyate soybean with enhanced mineral bioavailability.
The Measurement of Nanoparticle Concentrations by the Method of Microcavity Mode Broadening Rate

A measurement system for the detection of a low concentration of nanoparticles based on optical microcavities with whispering-gallery modes (WGMs) is developed and investigated. A novel method based on the WGM broadening allows us to increase the precision of concentration measurements up to 0.005 ppm for nanoparticles of a known size. We describe WGM microcavity manufacturing and quality control methods. The collective interaction process of suspended Ag nanoparticles in a liquid and TiO2 in the air with a microcavity surface is studied.