Miracle-dz/UniFAR-FTUs huggingface dataset:
Kinetics and Kinematics of the Free-Weight Back Squat and Loaded Jump Squat

Supplemental Digital Content is Available in the Text. Abstract Thompson, SW, Lake, JP, Rogerson, D, Ruddock, A, and Barnes, A. Kinetics and kinematics of the free-weight back squat and loaded jump squat. J Strength Cond Res 37(1): 1–8, 2023—The aim of this study was to compare kinetics and kinematics of 2 lower-body free-weight exercises, calculated from concentric and propulsion subphases, across multiple loads. Sixteen strength-trained men performed back squat 1 repetition maximum (1RM) tests (visit 1), followed by 2 incremental back squat and jump squat protocols (visit 2) (loads = 0% and 30–60%, back squat 1RM). Concentric phase and propulsion phase force-time-displacement characteristics were derived from force plate data and compared using analysis of variance and Hedges' g effect sizes. Intrasession reliability was calculated using intraclass correlation coefficient (ICC) and coefficient of variation (CV). All dependent variables met acceptable reliability (ICC >0.7; CV < 10%). Statistically significant 3-way interactions (load × phase × exercise) and 2-way main effects (phase × exercise) were observed for mean force, velocity (30–60% 1RM), power, work, displacement, and duration (0%, 30–50% 1RM) (p < 0.05). A significant 2-way interaction (load × exercise) was observed for impulse (p < 0.001). Jump squat velocity (g = 0.94–3.80), impulse (g = 1.98–3.21), power (g = 0.84–2.93), and work (g = 1.09–3.56) were significantly larger across concentric and propulsion phases, as well as mean propulsion force (g = 0.30–1.06) performed over all loads (p < 0.001). No statistically significant differences were observed for mean concentric force. Statistically longer durations (g = 0.38–1.54) and larger displacements (g = 2.03–4.40) were evident for all loads and both subphases (p < 0.05). Ballistic, lower-body exercise produces greater kinetic and kinematic outputs than nonballistic equivalents, irrespective of phase determination. Practitioners should therefore use ballistic methods when prescribing or testing lower-body exercises to maximize athlete's force-time-displacement characteristics.
RBFOX2 is required for establishing RNA regulatory networks essential for heart development

Abstract Human genetic studies identified a strong association between loss of function mutations in RBFOX2 and hypoplastic left heart syndrome (HLHS). There are currently no Rbfox2 mouse models that recapitulate HLHS. Therefore, it is still unknown how RBFOX2 as an RNA binding protein contributes to heart development. To address this, we conditionally deleted Rbfox2 in embryonic mouse hearts and found profound defects in cardiac chamber and yolk sac vasculature formation. Importantly, our Rbfox2 conditional knockout mouse model recapitulated several molecular and phenotypic features of HLHS. To determine the molecular drivers of these cardiac defects, we performed RNA-sequencing in Rbfox2 mutant hearts and identified dysregulated alternative splicing (AS) networks that affect cell adhesion to extracellular matrix (ECM) mediated by Rho GTPases. We identified two Rho GTPase cycling genes as targets of RBFOX2. Modulating AS of these two genes using antisense oligos led to cell cycle and cell-ECM adhesion defects. Consistently, Rbfox2 mutant hearts displayed cell cycle defects and inability to undergo endocardial-mesenchymal transition, processes dependent on cell-ECM adhesion and that are seen in HLHS. Overall, our work not only revealed that loss of Rbfox2 leads to heart development defects resembling HLHS, but also identified RBFOX2-regulated AS networks that influence cell-ECM communication vital for heart development.
Effects of Harvest Date and Growth Stage on Triticale Forages in the Southwest USA: Agronomic Characteristics, Nutritive Value, Energy Density, and In Vitro Disappearance of Dry Matter and Fiber.

Recently, there has been increased interest in including triticale (X Triticosecale Wittmack) or other winter cereals within forage programs throughout the southwest USA. Our objectives were to screen 14 diverse triticale cultivars for agronomic and nutritive characteristics with specific emphasis on identifying normal, as well as deviant, responses to calendar date and plant maturity for forages seeded in December, and harvested from late-February throughout May at Maricopa, AZ. Fourteen cultivars were established in a randomized complete block design with each cultivar represented within each of 3 field blocks. Plots were clean tilled and established 18 December 2018, and then harvested at 2-wk intervals beginning on 27 February and ending 23 May 2019. Across all harvest dates, forage (N = 315) energy density (NEL) exhibited strong negative correlations with growth stage (r = - 0.879), plant height (r = - 0.913), head weight (r = - 0.814), and estimated dry matter (DM) yield (r = - 0.886), but was positively associated with percentages of leaf (r = 0.949), and weakly associated with percentages of stem (r = 0.138). Through 10 April, similar correlations were observed within individual harvest dates (N = 45) for growth stage, leaf percentage, and plant height, but not for stem or head-weight percentages. Within later harvest dates, only sporadic correlations with NEL were observed. Primarily cubic regression relationships for neutral-detergent fiber, acid-detergent lignin, 30- and 48-h in-vitro disappearance of dry matter and fiber, and NEL were fit for the mean or typical cultivar using both days from 1 February and growth stage as independent variables. Coefficients of determination (R 2 ≥ 0.860) in all cases indicated good fit for the polynomial models. For NEL, deviation from the typical cultivar when days from 1 February was used as the independent regression variable was largely affected by cultivar maturation rate. When growth stage was substituted as the independent variable, plant height, stem percentage beginning at anthesis, and low grain-head percentage were associated with the maximum negative deviant cultivar (Merlin Max). The 0.23 Mcal/kg difference between maximum positive and negative deviant cultivars at a common late-boot/early-heading stage of growth suggests some attention should be placed on cultivar selection, as well as forage inventory needs and overall cropping goals.
Dynamic changes in gene expression during follicle development and the efficacy of four timed AI protocols in non-suckling female yaks (Bos grunniens)

Abstract The objectives of the study were to investigate changes in the mRNA expression levels of five genes during antral follicle development and to assess the efficacy of four timed-artificial insemination (TAI) protocols in female yaks (Bos grunniens). RT-qPCR analysis revealed that expression levels were greater for follicle-stimulating hormone receptor and bone morphogenic protein 15 in the small follicle, luteinizing hormone receptor, and kit ligand in the large follicle, and growth differentiation factor 9 in the medium follicle (p < 0.05). Non-suckling yaks were treated as a 7-d CIDR, and PGF2α + eCG at CIDR withdrawal and TAI with frozen yak semen at 56–58 h after PGF2α (PPe-7d); either a 7-d CIDR (PPG-7d) or a 5-d CIDR (PPG-5d), and PGF2α at CIDR withdrawal and TAI + GnRH at 70–72 h after PGF2α; and GnRH treatment on Day 0, followed by PGF2α on Day 7 and TAI + GnRH on Day 9 (GPG-7d). The results showed that the pregnancy rate (P/AI) was greater in PPG-5d than in GPG-7d (p < 0.05), but the P/AI was not different among the other TAI protocols. In conclusion, the expression levels of these genes in follicles are dynamically changed during antral follicle development in yaks. The PPG-5d protocol achieved a greater P/AI.
The microbial ecology of Escherichia coli in the vertebrate gut

Abstract Escherichia coli has a rich history as biology's ‘rock star’, driving advances across many fields. In the wild, E. coli resides innocuously in the gut of humans and animals but is also a versatile pathogen commonly associated with intestinal and extraintestinal infections and antimicrobial resistance—including large foodborne outbreaks such as the one that swept across Europe in 2011, killing 54 individuals and causing approximately 4000 infections and 900 cases of haemolytic uraemic syndrome. Given that most E. coli are harmless gut colonizers, an important ecological question plaguing microbiologists is what makes E. coli an occasionally devastating pathogen? To address this question requires an enhanced understanding of the ecology of the organism as a commensal. Here, we review how our knowledge of the ecology and within-host diversity of this organism in the vertebrate gut has progressed in the 137 years since E. coli was first described. We also review current approaches to the study of within-host bacterial diversity. In closing, we discuss some of the outstanding questions yet to be addressed and prospects for future research.
Disulfiram inhibits neutrophil extracellular trap formation and protects rodents from acute lung injury and SARS-CoV-2 infection

Severe acute lung injury has few treatment options and a high mortality rate. Upon injury, neutrophils infiltrate the lungs and form neutrophil extracellular traps (NETs), damaging the lungs and driving an exacerbated immune response. Unfortunately, no drug preventing NET formation has completed clinical development. Here, we report that disulfiram — an FDA-approved drug for alcohol use disorder — dramatically reduced NETs, increased survival, improved blood oxygenation, and reduced lung edema in a transfusion-related acute lung injury (TRALI) mouse model. We then tested whether disulfiram could confer protection in the context of SARS-CoV-2 infection, as NETs are elevated in patients with severe COVID-19. In SARS-CoV-2–infected golden hamsters, disulfiram reduced NETs and perivascular fibrosis in the lungs, and it downregulated innate immune and complement/coagulation pathways, suggesting that it could be beneficial for patients with COVID-19. In conclusion, an existing FDA-approved drug can block NET formation and improve disease course in 2 rodent models of lung injury for which treatment options are limited.
In silico evaluation of binding of phytochemicals from bayati (Anamirta cocculus Linn) to the glutathione-s-transferase of Asian Corn Borer (Ostrinia furnacalis Guenée)

Abstract Asian corn borer (ACB) is a destructive insect pest of corn and causes up to 80% yield reduction in the Philippines. Synthetic insecticides have been used to control ACB but they pose a risk to human health and the environment. The use of synergists increases insecticide effectiveness and decreases the frequency of insecticide application. In line with this principle, we performed in silico screening of phytochemicals from bayati against glutathione-s-transferase (GST), one of the important detoxifying enzymes of ACB. Homology modeling was done to generate an acceptable three-dimensional protein structure (OfGST). Through ensemble molecular docking, we found that three phytosterols (stigmasterol, lupeol, and gamma-sitosterol) from bayati have a higher binding affinity to OfGST than glutathione, its natural substrate. Molecular dynamics simulation revealed that lupeol and gamma-sitosterol have a greater stabilizing effect on OfGST than stigmasterol, as supported by the RMSD, radius of gyration, and SASA plots of all complexes. Communicated by Ramaswamy H. Sarma
National Surgical Quality Improvement Program Adverse Events Combined With Clavien-Dindo Scores Can Direct Quality Improvement Processes in Surgical Patients

Objective The burden of postoperative adverse events (AE) weighs immediately on the patient as unanticipated stress and on the healthcare system as unreimbursed cost. Applying the Clavien-Dindo (C-D) system of AE gradation as a surrogate of cost, we analyzed 4 years’ data from a single-state National Surgical Quality Improvement Program (NSQIP) collaboration, hypothesizing that trends of AE were consistent over time and that more frequently performed cases would be associated with less and more minor AE. Methods The NSQIP defined AEs, consisting of 21 listed postoperative occurrences, which were analyzed using deidentified 30-day postoperative data for 2015 to 2018. Each AE was graded using (C-D) severity (1, lowest; 4, highest with survival). The C-D severity weight, as defined in previous multi-institutional studies, was used as a surrogate for cost and unplanned patient burden. Adverse event incidence was calculated as sum AE/case volume, and population burden as total AE burden/case volume. Results There were 12,567 surgical cases recorded by members of the state collaborative. The overall data demonstrated no significant difference in AE incidence; however, the burden of AE increased by 18.8%. The 8 most common Current Procedural Terminology codes had approximately 50% lower AE incidence compared with overall cases; however, the incidence increased by 56.0% and the AE burden/case increased by 48.0%. Conclusions Although the 8 most common Current Procedural Terminology codes showed a 50% lower AE incidence compared with overall cases, the incidence increased over the study period. Surgical quality initiatives should be patient centered and focus on high burden AE.
scHFC: a hybrid fuzzy clustering method for single-cell RNA-seq data optimized by natural computation

Rapid development of single-cell RNA sequencing (scRNA-seq) technology has allowed researchers to explore biological phenomena at the cellular scale. Clustering is a crucial and helpful step for researchers to study the heterogeneity of cell. Although many clustering methods have been proposed, massive dropout events and the curse of dimensionality in scRNA-seq data make it still difficult to analysis because they reduce the accuracy of clustering methods, leading to misidentification of cell types. In this work, we propose the scHFC, which is a hybrid fuzzy clustering method optimized by natural computation based on Fuzzy C Mean (FCM) and Gath-Geva (GG) algorithms. Specifically, principal component analysis algorithm is utilized to reduce the dimensions of scRNA-seq data after it is preprocessed. Then, FCM algorithm optimized by simulated annealing algorithm and genetic algorithm is applied to cluster the data to output a membership matrix, which represents the initial clustering result and is taken as the input for GG algorithm to get the final clustering results. We also develop a cluster number estimation method called multi-index comprehensive estimation, which can estimate the cluster numbers well by combining four clustering effectiveness indexes. The performance of the scHFC method is evaluated on 17 scRNA-seq datasets, and compared with six state-of-the-art methods. Experimental results validate the better performance of our scHFC method in terms of clustering accuracy and stability of algorithm. In short, scHFC is an effective method to cluster cells for scRNA-seq data, and it presents great potential for downstream analysis of scRNA-seq data. The source code is available at https://github.com/WJ319/scHFC.
Assessment of the influence of interference on the sliding mode observer

The article presents the results of studying the effect of interference on the sliding mode observer. The effect of interference in the lines feeding the engine is evaluated. The measured interference is present in the current signal. The operation of a sliding observer of the position and speed of the rotor of a permanent magnet synchronous motor is described. This observer is used as part of a sensorless vector drive control system. The presented version of the motor state observer is implemented by creating a model in the Matlab Simulink software package and tested on the bench using a 200W motor. The aim of the work is to develop an observer who is resistant to drive parameter changes.
Axillary Microbiota Is Associated with Cognitive Impairment in Parkinson’s Disease Patients

Parkinson's disease (PD) is the second most common neurodegenerative disease. Cognitive impairment (CI) in PD has significant negative impacts on life quality of patients. ABSTRACT Cognitive impairment (CI) is among the most common non-motor symptoms of Parkinson’s disease (PD), with a substantially negative impact on patient management and outcome. The development and progression of CI exhibits high interindividual variability, which requires better diagnostic and monitoring strategies. PD patients often display sweating disorders resulting from autonomic dysfunction, which has been associated with CI. Because the axillary microbiota is known to change with humidity level and sweat composition, we hypothesized that the axillary microbiota of PD patients shifts in association with CI progression, and thus can be used as a proxy for classification of CI stages in PD. We compared the axillary microbiota compositions of 103 PD patients (55 PD patients with dementia [PDD] and 48 PD patients with mild cognitive impairment [PD-MCI]) and 26 cognitively normal healthy controls (HC). We found that axillary microbiota profiles differentiate HC, PD-MCI, and PDD groups based on differential ranking analysis, and detected an increasing trend in the log ratio of Corynebacterium to Anaerococcus in progression from HC to PDD. In addition, phylogenetic factorization revealed that the depletion of the Anaerococcus, Peptoniphilus, and W5053 genera is associated with PD-MCI and PDD. Moreover, functional predictions suggested significant increases in myo-inositol degradation, ergothioneine biosynthesis, propionate biosynthesis, menaquinone biosynthesis, and the proportion of aerobic bacteria and biofilm formation capacity, in parallel to increasing CI. Our results suggest that alterations in axillary microbiota are associated with CI in PD. Thus, axillary microbiota has the potential to be exploited as a noninvasive tool in the development of novel strategies. IMPORTANCE Parkinson's disease (PD) is the second most common neurodegenerative disease. Cognitive impairment (CI) in PD has significant negative impacts on life quality of patients. The emergence and progression of cognitive impairment shows high variability among PD patients, and thus requires better diagnostic and monitoring strategies. Recent findings indicate a close link between autonomic dysfunction and cognitive impairment. Since thermoregulatory dysfunction and skin changes are among the main manifestations of autonomic dysfunction in PD, we hypothesized that alterations in the axillary microbiota may be useful for tracking cognitive impairment stages in PD. To our knowledge, this the first study characterizing the axillary microbiota of PD patients and exploring its association with cognitive impairment stages in PD. Future studies should include larger cohorts and multicenter studies to validate our results and investigate potential biological mechanisms.
Molecular ontology of the parabrachial nucleus

Diverse neurons in the parabrachial nucleus (PB) communicate with widespread brain regions. Despite evidence linking them to a variety of homeostatic functions, it remains difficult to determine which PB neurons influence which functions because their subpopulations intermingle extensively. An improved framework for identifying these intermingled subpopulations would help advance our understanding of neural circuit functions linked to this region. Here, we present the foundation of a developmental‐genetic ontology that classifies PB neurons based on their intrinsic, molecular features. By combining transcription factor labeling with Cre fate‐mapping, we find that the PB is a blend of two, developmentally distinct macropopulations of glutamatergic neurons. Neurons in the first macropopulation express Lmx1b (and, to a lesser extent, Lmx1a) and are mutually exclusive with those in a second macropopulation, which derive from precursors expressing Atoh1. This second, Atoh1‐derived macropopulation includes many Foxp2‐expressing neurons, but Foxp2 also identifies a subset of Lmx1b‐expressing neurons in the Kölliker–Fuse nucleus (KF) and a population of GABAergic neurons ventrolateral to the PB (“caudal KF”). Immediately ventral to the PB, Phox2b‐expressing glutamatergic neurons (some coexpressing Lmx1b) occupy the KF, supratrigeminal nucleus, and reticular formation. We show that this molecular framework organizes subsidiary patterns of adult gene expression (including Satb2, Calca, Grp, and Pdyn) and predicts output projections to the amygdala (Lmx1b), hypothalamus (Atoh1), and hindbrain (Phox2b/Lmx1b). Using this molecular ontology to organize, interpret, and communicate PB‐related information could accelerate the translation of experimental findings from animal models to human patients.
Parental work hours and household income as determinants of unhealthy food and beverage intake in young Australian children

Abstract Objective: This study examined parental work hours and household income as determinants of discretionary (energy-dense, nutrient-poor) food and beverage intake in young children, including differences by eating occasion. Design: Secondary analysis of cross-sectional data. Three hierarchical regression models were conducted with percentage of energy from discretionary food and beverages across the day, at main meals and at snack times being the outcomes. Dietary intake was assessed by 1 × 24-h recall and 1–2 × 24-h food record(s). Both maternal and paternal work hours were included, along with total household income. Covariates included household, parent and child factors. Setting: Data from the NOURISH/South Australian Infants Dietary Intake studies were collected between 2008 and 2013. Participants: Participants included 526 mother–child dyads (median (interquartile range) child age 1·99 (1·96, 2·03) years). Forty-one percentage of mothers did not work while 57 % of fathers worked 35–40 h/week. Most (85 %) households had an income of ≥$50 k AUD/year. Results: Household income was consistently inversely associated with discretionary energy intake (β = –0·12 to –0·15). Maternal part-time employment (21–35 h/week) predicted child consumption of discretionary energy at main meals (β = 0·10, P = 0·04). Paternal unemployment predicted a lower proportion of discretionary energy at snacks (β = -0·09, P = 0·047). Conclusions: This work suggests that household income should be addressed as a key opportunity-related barrier to healthy food provision in families of young children. Strategies to reduce the time burden of healthy main meal provision may be required in families where mothers juggle longer part-time working hours with caregiving and domestic duties. The need to consider the role of fathers and other parents/caregivers in shaping children’s intake was also highlighted.