Miracle-dz/UniFAR-FTUs huggingface dataset:
Cloacal microbial communities of female spotted towhees Pipilo maculatus: microgeographic variation and individual sources of variability

We used Polymerase Chain Reaction (PCR) amplification of 16S rRNA genes and Denaturing Gradient Gel Electrophoresis (DGGE) to describe the microbial communities present in the cloacae of spotted towhees Pipilo maculatus. Our goals were to quantify bacterial diversity of breeding females, describe microgeographic variation of cloacal communities in a network of four urban parks in Portland, OR, and evaluate the degree to which microbial species richness varied with individual female characteristics (age, size, and condition). We detected 57 Operational Taxonomic Units (OTUs) in 46 towhees, but most OTUs showed a relatively low prevalence. Discriminant function analysis correctly classified 69.6% of towhees to their park of origin based on the presence or absence of five OTUs. Parks thus had unique “microbial signatures”. The presence or absence of specific OTUs was not associated with a female's age, but a general linear models analysis established that OTU richness was greatest among females with short tails, narrow bills, and with the exception of one individual, among relatively heavy birds. We speculate that the microgeographic differences in cloacal microbial community structure may exist due to differences in anthropogenic influences among parks. The explanations for the negative relationship between microbial richness and flight feather length, but positive relationship between microbial richness and body condition are unclear, but may reflect the different time frames over which feather growth and body mass are determined.
Song complexity and song structure in the Moustached Warbler Acrocephalus melanopogon

We examined different song parameters leading to a complex song configuration, and song output (production), and their relation in male Moustached Warblers and discuss them with reference to female choice. With more than 120 different syllables per two minutes of song, male Moustached Warblers can be regarded as one of the most complex singers within the genus Acrocephalus. We found significant differences between males for almost all song parameters investigated (repertoire size, switching and repetition rate, song speed and strophe length) but not for time spent singing per 20 minutes. This individual variation probably is an important cue for female mate choice. Male Moustached Warblers achieve song complexity mainly via frequent syllable switching. Song complexity seems to be consistent throughout the song and our results suggest that females could assess the overall song complexity of a singer by examining even very short song bouts. Furthermore, a high proportion of motifs - clusters of syllables with the same sequence - occurs within the song of each male which would also facilitate assessment of song complexity by females. However, repertoire size and strophe length were positively related, thus it remains to be investigated which song feature, if any, females actually use.
The place of brassinolide in the sequential response to plant growth regulators in elongating tissue

In the sequential response to plant growth regulators in young elongating tissue from peas and wheat the peak of sensitivity to 24-epi-brussinolide (1 μM) occurs after those of gibberellin and cytokinin and begins before that of auxin in isolated wheat (Triticum vulgare L. ev. Egret) coleoptiles aged from 21-96 h. In dwarf pea (Pisum sativum L. cv. Greenfeast) segments, the peak of sensitivity also lies between those of gibberellin and auxin, and it also occurs before sensitivity to auxin in sections from first leaves of wheat. All the leaf sections and all but the most mature coleoptiles and pea segments were sensitive to fusicocein (1 μM).
Expanded Imaging Classification of Autosomal Dominant Polycystic Kidney Disease.

BACKGROUND The Mayo Clinic imaging classification of autosomal dominant polycystic kidney disease (ADPKD) uses height-adjusted total kidney volume (htTKV) and age to identify patients at highest risk for disease progression. However, this classification applies only to patients with typical diffuse cystic disease (class 1). Because htTKV poorly predicts eGFR decline for the 5%-10% of patients with atypical morphology (class 2), imaging-based risk modeling remains unresolved. METHODS Of 558 adults with ADPKD in the HALT-A study, we identified 25 patients of class 2A with prominent exophytic cysts (class 2Ae) and 43 patients of class 1 with prominent exophytic cysts; we recalculated their htTKVs to exclude exophytic cysts. Using original and recalculated htTKVs in association with imaging classification in logistic and mixed linear models, we compared predictions for developing CKD stage 3 and for eGFR trajectory. RESULTS Using recalculated htTKVs increased specificity for developing CKD stage 3 in all participants from 82.6% to 84.2% after adjustment for baseline age, eGFR, BMI, sex, and race. The predicted proportion of class 2Ae patients developing CKD stage 3 using a cutoff of 0.5 for predicting case status was better calibrated to the observed value of 13.0% with recalculated htTKVs (45.5%) versus original htTKVs (63.6%). Using recalculated htTKVs reduced the mean paired difference between predicted and observed eGFR from 17.6 (using original htTKVs) to 4.0 ml/min per 1.73 m2 for class 2Ae, and from -1.7 (using original htTKVs) to 0.1 ml/min per 1.73 m2 for class 1. CONCLUSIONS Use of a recalculated htTKV measure that excludes prominent exophytic cysts facilitates inclusion of class 2 patients and reclassification of class 1 patients in the Mayo classification model.
The Effect of Domain-Specific Sitting Time and Exercise Habits on Metabolic Syndrome in Japanese Workers: A Cross-Sectional Study

The effects of domain-specific (i.e., occupational, leisure-time on workday, and holiday) sitting time (ST), and exercise on metabolic syndrome (MetS) development are insufficiently studied. The present study aimed to examine the single and combined effects of each domain-specific ST and exercise habits on MetS. The total and domain-specific STs of 5530 participants were collected using a validated questionnaire. The multiple logistic regression analyses determined the effects of each domain-specific ST and exercise habit on MetS. Of all participants, 7.8% had MetS. Odds ratios (ORs) for MetS were significant only in the group with the longest leisure-time ST on holidays (OR, 1.43; 95% confidence interval [CI], 1.12–1.83); we found no significant associations with any other domain-specific ST after statistical adjustment for confounders. The no-habitual-exercise group clearly had a higher risk for MetS (OR, 1.44; 95% CI, 1.15–1.80). The significantly higher ORs for MetS was shown in only the combined longer total ST (OR, 1.64; 95% CI, 1.12–2.39) and holiday ST (OR, 1.83; 95% CI, 1.30–2.59) with no habitual exercise. These findings suggested that accumulated daily total ST, particularly leisure-time ST on holidays with no-habitual exercise, can increase the risk of MetS and it could possibly be mitigated by habitual exercise.
Increase in the Acute:Chronic Workload Ratio relates to Injury Risk in Competitive Runners

Abstract Injuries of runners reduce the ability to train and hinder competing. Literature shows that the relation between potential risk factors and injuries are not definitive, limited, and inconsistent. In team sports, workload derivatives were identified as risk factors. However, there is an absence of literature in running on workload derivatives. This study used the workload derivatives acute workload, chronic workload, and acute: chronic workload ratios to investigate the relation between workload and injury risk in running. Twenty-three competitive runners kept a daily training log for 24 months. The runners reported training duration, training intensity and injuries. One-week (acute) and 4-week (chronic) workloads were calculated as the average of training duration multiplied by training intensity. The acute:chronic workload ratio was determined dividing the acute and chronic workloads. Results show that a fortnightly low increase of the acute:chronic workload ratio (0.10–0.78) led to an increased risk of sustaining an injury (p<0.001). Besides, a low increase of the acute:chronic workload ratio (0.05–0.62) between the second week and third week before an injury showed an association with increased injury risk (p=0.013). These findings demonstrate that the acute:chronic workload ratio relates to injury risk.
Highly efficient conversion of polysialoganglioside to GM1 with Brevibacterium casei as a microbial biocatalyst

A novel bacterium, which can be used to convert polysialoganglioside to GM1 efficiently, was isolated from soil with ganglioside as the sole source of carbon. It was identified tentatively as Brevibacterium casei. In a typical experiment, 0.8 g of highly purified GM1 (93%) was obtained from 1.5 g free GM1 crude ganglioside after chromatographic separation. The overall yield of this procedure was estimated to be more than 50% (w/w).
Accuracy of Different Indexes of Body Composition and Adiposity in Identifying Metabolic Syndrome in Adult Subjects with Prader-Willi Syndrome

(1) Objective: To compare the accuracy of different indexes of adiposity and/or body composition in identifying metabolic syndrome (MetS) in adult patients suffering from Prader‒Willi syndrome (PWS). (2) Study Design: One hundred and twenty PWS patients (69 females and 51 males), aged 29.1 ± 9.4 years, body mass index (BMI) 36.7 ± 9.9, were evaluated. The following indexes were assessed in each subject: body mass index (BMI), fat-free mass index (FFMI), fat mass index (FMI), tri-ponderal mass index (TMI), waist-to-height ratio (WtHR) and the body mass fat index (BMFI), which adjusts the BMI for the percentage of body fat and waist circumference. Thereafter, a threshold value adjusted for age and sex, which could identify MetS, was calculated for each index. (3) Results: A significant correlation was found among all indexes (p < 0.0001 for all). However, when the area under the curve (AUC) was compared, BMFI performed better than FMI (p < 0.05) and BMI better than TMI (p < 0.05), but only in females. (4) Conclusions: Besides small differences, all the indexes taken into consideration seem to have the same ability to identify MetS in adults with PWS. Consequently, the most easily calculated index, i.e., BMI, should be considered as the best choice. The use of thresholds appropriate for sex and age can further improve its accuracy.
Letter to the Editor: Cilofexor in Patients With Nonalcoholic Steatohepatitis (NASH): Is It Really Effective?

We read with interest the article by Patel et al. highlighting the safety and efficacy of a nonsteroidal farnesoid X receptor (FXR) agonist, cilofexor, in patients with nonalcoholic steatohepatitis (NASH). (1) The authors concluded that cilofexor for 24 weeks was well tolerated and provided significant reductions in hepatic steatosis, abnormal liver biochemistry, and serum bile acids. However, the study has a few major methodological flaws, which limit the interpretation of results and the clinical application.
Precision in estimates of density and biomass of Norwegian spring-spawning herring based on acoustic surveys

Abstract The abundance and biomass of the Norwegian spring-spawning herring (NSSH) stock are assessed annually using a virtual population analysis (VPA) applied to catch-at-age data from the fishery and fishery-independent abundance indices derived from research vessel surveys for calibration (‘tuning’). The most important of these surveys is the International Ecosystem Survey in the Nordic Seas (IESNS) and this is highly influential for the outcome of the assessment. Until now, the abundance indices from the IESNS have been reported without any measure of uncertainty. In this study, the sampling errors associated with the density estimates of NSSH from the IESNS for the years 2009–2012 are estimated using design-based survey sampling theory. The annual survey estimates of number and biomass of herring per square nautical mile (nm2) were relatively precise for all age groups combined, with relative standard error (RSE) ranging from 8% to 15%, while for each individual age group (3–12) the RSE was less than 30% for most years. For age groups 1 and 2, and all age groups older than 12 years, the density estimates are highly imprecise, with RSE ranging from 30% to 100%. The precision in estimated density provided here indicates that the time series from the survey can be used to study trends in overall abundance and biomass of the stock. It is recommended that statistical assessment models that can account for sampling errors in input data from survey indices by age group and catch-at-age be tested in the assessments of the NSSH stock.
Effects of altered salinity, darkness and algal nutrient status on floridoside and starch content, α-galactosidase activity and agar yield of cultivated Gracilaria sordida

The red alga, Gracilaria sordida, was cultivated under growth conditions giving nutrient-starved and nutrient-enriched algal cultures. These cultures were then subjected to darkness and altered salinity. Water fluxes in or out of the alga, following the osmotic gradient, resulted in changed algal water content with changed external salinity. Furthermore, the nutrient content of the seaweed influenced its process of osmotic acclimation, starch content and agar yield. The inorganic ion content of enriched algae was lower, and their floridoside pool increased significantly under conditions of darkness and high salinity. A decrease in salinity-enhanced α-galactosidase activity, especially in enriched tissue, indicating increased floridoside degradation under these conditions. Starch degradation occurred during darkness, predominantly in enriched tissue. In addition, starch degradation increased in enriched tissue on exposure of algae to hypersaline followed by hyposaline conditions. In general, lower agar yie.
Participation in a System-Thinking Simulation Experience Changes Adverse Event Reporting

Introduction System failures are contributing factors in the thousands of adverse events occurring in US healthcare institutions yearly. This study explored the premise that exposure to a simulation experience designed to improve system thinking (ST) would impact adverse event reporting patterns. Methods An intervention-control study was used to explore impacts of participation in a simulation designed to improve ST on adverse event reporting. Each summer Bachelor in Nursing Science students along with medical students participate in a week-long simulation-based interprofessional patient safety course. During the 2017 course, Friday Night in the ER, a table-top simulation designed to develop ST was included. As part of the school nursing's simulation program, students are asked to report adverse events observed or committed during simulation encounters into a simulated adverse event reporting system outside the simulation-based interprofessional patient safety course. Adverse event reporting system data were used to examine patterns of adverse event reporting in control and intervention groups studied. Results Findings demonstrated differences in proportions of reported adverse events. The proportion of reported adverse events by students with the second and terminal semesters of course work combined and the 2016 and 2018 control groups combined demonstrated statistically significant differences, P < 0.001. Additional analysis revealed that the intervention group reported more medication-related events, whereas the control group reported more failure to rescue and airway-related events. Conclusions Exposure to a simulation designed to develop ST seems to impact adverse event reporting. These findings support the idea that ST may change safety monitoring behaviors.
Seasonal pattern of chytridiomycosis in common river frog (Amietia angolensis ) tadpoles in the South African Grassland Biome

Environmental parameters such as temperature and rainfall influence the biology of amphibians and are likely to similarly influence the growth and prevalence of associated pathogens. Amphibian chytrid fungus, Batrachochytrium dendrobatidis (Bd), causes an infectious disease, chytridiomycosis, in amphibians worldwide. Field studies on post-metamorphic anurans from tropical Australia have correlated increased prevalence with cool winter temperatures, but similar studies are lacking from Africa. We monitored the seasonality of amphibian chytrid in the Highveld of South Africa through microscopic examination of common river frog (Amietia angolensis ) tadpoles over 12 months.Within the study area Bd was found to be widespread, but largely limited to riverine systems. The seasonal infection pattern was inconsistent with the findings of past studies, which showed that prevalence usually peaks during the cooler months of the year. This study indicates that infection levels increased during spring in the Grassland Biome, when temperatures favoured optimum thermal growth of the fungus and when streams reached minimum flow levels.
Observations of mixed-species bird flocks at Kichwa Tembo Camp, Kenya

Mixed-species foraging flocks were studied at Kichwa Tembo Camp on the edge of the Masai Mara National Reserve in Kenya between July and September 2004. Observations were made on 29 mixed-species flocks, in which 24 species participated. African Paradise-Flycatcher Terpsiphone viridis, Black-backed Puffback Dryoscopus cubla, Grey-backed Camaroptera Camaroptera brachyura, Collared Sunbird Hedydipna collars and Cabanis's Greenbul Phyllastrephus cabanisi were the most common participants in mixed-species flocks, as well as among the most frequently encountered bird species overall. The Black-backed Puffback was identified as the nuclear species in flocks due to their abundance and frequency with which they were followed by other species. Mixed-species flocks represent another niche dimension in this diverse bird community, but few of these species could be described as flock specialists; most of the birds observed in mixed-species flocks in this study were opportunistic attendant species, including the African Pygmy-Kingfisher Ispidina picta, not previously described as joining mixed-species flocks.
Altered hippocampal centrality and dynamic anatomical covariance of intracortical microstructure in first episode psychosis

Hippocampal circuitry has been posited to be fundamental to positive symptoms in psychosis, but its contributions to other factors important for outcome remains unclear. We hypothesized that longitudinal changes in the hippocampal circuit and concomitant changes of intracortical microstructure are altered in first episode psychosis (FEP) patients and that such changes are associated with negative symptoms and verbal memory. Longitudinal brain scans (2–4 visits over 3–15 months) were acquired for 27 FEP and 29 age‐ and sex‐matched healthy controls. Quantitative T1 maps, sensitive to myelin content, were used to sample the microstructure of the hippocampal subfields and output circuitry (fimbria, alveus, fornix, mammillary bodies), and intracortical regions. Dynamic anatomical covariance in pair‐wise regional trajectories were assessed for each subject, and graph theory was used to calculate a participation coefficient metric that quantifies the similarity/divergence between hippocampal and intracortical microstructure. The mean participation coefficient of the hippocampus was significantly reduced in FEP patients compared with controls, reflecting differences in output hippocampal regions. Importantly, lower participation coefficient of the hippocampal circuit was associated with worse negative symptoms, a relationship that was mediated by changes in verbal memory. This study provides evidence for reduced hippocampal centrality in FEP and concomitant changes in intracortical anatomy. Myelin‐rich output regions of the hippocampus may be an important biological trigger in early psychosis, with cascading effects on broader cortical networks and resultant clinical profiles.
The Interrelationships between Parental Migration, Home Environment, and Early Child Development in Rural China: A Cross-Sectional Study

A growing body of literature is providing evidence of a negative association between parental migration and child development. Meanwhile, the chain of relationships between parental migration, home environment, and early child development has not yet been well documented in China. This paper investigates the interrelationships between parental migration, home environment, and early child development in an undeveloped area of western rural China. In total, 444 households were included in the study. Bayley Scales of Infant Development version III (BSID-III), Home Observation Measurement of the Environment (HOME), and a socioeconomic questionnaire, were used to measure children’s development outcomes, home environment, and socioeconomic characteristics in sample households. A mediation effect model was used to estimate the interrelationships between parental migration, home environment, and child development. The results demonstrate that home environment works as a significant mediator, through which parental migration is associated with a 0.07 standard deviation (SD), 0.13 SD, 0.12 SD, and 0.10 SD decline in the child’s cognitive, language, motor, and social-emotional scores, respectively. For future studies, the key findings suggest that interventions aimed at improving the home environments of left-behind children might be necessary in rural China.
Dermatological insights from Google Trends: what does the public think is important during COVID‐19 lockdown?

In the United Kingdom, Google is often the search engine used to explore information relating to many aspects of people's lives, including dermatological advice and information. The frequency of searching for particular terms could indicate the relative importance that the public assigns to various conditions and is dynamic, fluctuating in different societal contexts, such as during a pandemic.
DNA methylation in the pathology of Alzheimer's disease: from gene to cognition

Alzheimer's disease (AD) is a debilitating disorder that manifests with amyloid beta plaque deposition, neurofibrillary tangles, neuronal loss, and severe cognitive impairment. Although much effort has been made to decipher the pathogenesis of this disease, the mechanisms causing these detrimental outcomes remain obscure. Over the past few decades, neuroepigenetics has emerged as an important field that, among other things, explores how reversible modifications can change gene expression to control behavior and cognitive abilities. Among epigenetic modifications, DNA methylation requires further elucidation for the conflicting observations from AD research and its pivotal role in learning and memory. In this review, we focus on the essential components of DNA methylation, the effects of aberrant methylation on gene expressions in the amyloidogenic pathway and neurochemical processes, as well as memory epigenetics in Alzheimer's disease.