Miracle-dz/UniFAR-FTUs huggingface dataset:
Late Cenozoic cooling and evolution history of the Kangmar dome in southern Tibet: Insights from inverse thermal modeling

The North Himalayan Gneiss Domes, which are essential parts of the Cenozoic extensional structures in Southern Tibet, record the thermal and tectonic processes that occurred after the India-Asian collision and are thought to be effective structures regulating post-collision intracontinental deformation. However, it is still unclear how these domes are formed and how they contribute to the regulation process. Here, we performed detailed geological mapping, elevation transect sampling, low-temperature thermochronological testing, and 3D modeling on the Kangmar dome, which is located west of the N‒S treading Yadong-Gulu rift, and its core-cover contact fault is suspected to be the northern continuation of the South Tibetan Detachment System (STDS). Our analysis revealed a discrepancy in the deformation histories of the dome’s northern and southern portions. We proposed a model in which the core-cover contact fault of the Kangmar dome was a part of the South Tibetan Detachment System and the doming event that occurred at ∼12.2 Ma was dominated by thrust stacking of the southward mid-crustal channel flow. The rapid cooling following the middle Miocene was possibly influenced by the N‒S Trending Yadong-Gulu rift activity. The present landscape was shaped by the incision of the Nianchu River, which was accompanied by increased glacial activity during the Pleistocene. Our findings enhance the intracontinental deformation patterns following collisions and shed light on the numerous domes in Himalayas and other orogenic belts.
Predicting the effects of rare genetic variants on oncogenic signaling pathways: A computational analysis of HRAS protein function

The HRAS gene plays a crucial role in regulating essential cellular processes for life, and this gene's misregulation is linked to the development of various types of cancers. Nonsynonymous single nucleotide polymorphisms (nsSNPs) within the coding region of HRAS can cause detrimental mutations that disrupt wild-type protein function. In the current investigation, we have employed in-silico methodologies to anticipate the consequences of infrequent genetic variations on the functional properties of the HRAS protein. We have discovered a total of 50 nsSNPs, of which 23 were located in the exon region of the HRAS gene and denoting that they were expected to cause harm or be deleterious. Out of these 23, 10 nsSNPs ([G60V], [G60D], [R123P], [D38H], [I46T], [G115R], [R123G], [P11OL], [A59L], and [G13R]) were identified as having the most delterious effect based on results of SIFT analysis and PolyPhen2 scores ranging from 0.53 to 69. The DDG values −3.21 kcal/mol to 0.87 kcal/mol represent the free energy change associated with protein stability upon mutation. Interestingly, we identified that the three mutations (Y4C, T58I, and Y12E) were found to improve the structural stability of the protein. We performed molecular dynamics (MD) simulations to investigate the structural and dynamic effects of HRAS mutations. Our results showed that the stable model of HRAS had a significantly lower energy value of −18756 kj/mol compared to the initial model of −108915 kj/mol. The RMSD value for the wild-type complex was 4.40 Å, and the binding energies for the G60V, G60D, and D38H mutants were −107.09 kcal/mol, −109.42 kcal/mol, and −107.18 kcal/mol, respectively as compared to wild-type HRAS protein had −105.85 kcal/mol. The result of our investigation presents convincing corroboration for the potential functional significance of nsSNPs in augmenting HRAS expression and adding to the activation of malignant oncogenic signalling pathways.
A circular bioprocess application of algal-based substrate for Bacillus subtilis natto production of γ-PGA

Poly-γ-glutamic acid (γ-PGA) is a bio-derived water-soluble, edible, hydrating, non-immunogenic polymer. Bacillus subtilis natto is a wild-type γ-PGA producer originally isolated from Japanese fermented natto beans whose activity has been shown to be enhanced through ion-specific activation of Extrachromosomal DNA maintenance mechanisms. Being a GRAS γ-PGA producer, this microorganism has attracted great interest in its use within an industrial context. Here we successfully synthesised amorphous, crystalline and semi-crystalline γ-PGA between 11–27 g/L. In line with circular economy principles, scalable macroalgal biomass has been evaluated as substrate for γ-PGA, displaying great potential in both yields and material composition. In this study whole cell, freeze dried seaweed -namely Laminaria digitata, Saccharina latissima and Alaria esculenta-were pre-treated by means of mechanical methods, sterilised and subsequently inoculated with B. subtilis natto. High shear mixing was found to be the most suitable pre-treatment technique. Supplemented L. digitata (9.1 g/L), S. latissima (10.2 g/L), A. esculenta (13 g/L) displayed γ-PGA yields comparable to those of standard GS media (14.4 g/L). Greatest yields of pure γ-PGA were obtained during the month of June for L. digitata (Avg. 4.76 g/L) comparable to those obtained with GS media (7.0 g/L). Further, pre-treated S. latissima and L. digitata complex media enabled for high molar mass (4,500 kDa) γ-PGA biosynthesis at 8.6 and 8.7 g/L respectively. Compared to standard GS media, algal derived γ-PGA displayed significantly higher molar masses. Further studies will be necessary to further evaluate the impact of varying ash contents upon the stereochemical properties and modify the properties of algal media based γ-PGA with the aid of key nutrients; however, the material synthesised to date can directly displace a number of fossil fuel derived chemicals in drug delivery applications, cosmetics, bioremediation, wastewater treatment, flocculation and as cryoprotectants.
Surfaces of gymnastic equipment as reservoirs of microbial pathogens with potential for transmission of bacterial infection and antimicrobial resistance

Gymnastic equipment surfaces are shared by many people, and could mediate the transfer of bacterial pathogens. To better understand this detrimental potential, investigations on the reservoirs of bacterial pathogens and antimicrobial resistance on the surfaces of gymnastic equipment were performed by analyzing the bacterial community structures, prevalence of viable bacteria, and presence of antimicrobial resistance on both indoor and outdoor gymnastic facilities. The results of high-throughput 16S rDNA amplicon sequencing showed that Gram-positive bacteria on the surfaces of indoor gymnastic equipment significantly enriched, including the opportunistic pathogen Staphylococcus strains, while Enterobacteriaceae significantly enriched on surfaces of outdoor gymnastic equipment. The analysis of α-diversities showed a higher richness and diversity for bacterial communities on the surfaces of gymnastic equipment than the environment. Analysis of β-diversities showed that the bacterial communities on the surfaces of gymnastic equipment differ significantly from environmental bacterial communities, while the bacterial communities on indoor and outdoor equipment are also significantly different. Thirty-four bacterial isolates were obtained from the surfaces of gymnastic equipment, including three multidrug Staphylococcus and one multidrug resistant Pantoea. In particular, Staphylococcus hemolyticus 5–6, isolated from the dumbbell surface, is a multidrug resistant, hemolytic, high- risk pathogen. The results of quantitative PCR targeting antibiotic resistance related genes (intI1, sul1 and blaTEM) showed that the abundances of sul1 and blaTEM genes on the surfaces of gymnastic equipment are higher than the environment, while the abundances of sul1 gene on indoor equipment are higher than outdoor equipment. These results lead to the conclusion that the surfaces of gymnastic equipment are potential dissemination pathways for highly dangerous pathogens as well as antimicrobial resistance, and the risks of indoor equipment are higher than outdoor equipment.
Flow Characterization Studies of the 10-MW TP3 Arc-Jet Facility: Probe Sweeps

This paper reports computational simulations and analysis in support of calibration and flow characterization tests in a high enthalpy arc-jet facility at NASA Ames Research Center. These tests were conducted in the NASA Ames 10-MW TP3 facility using flat-faced stagnation calorimeters at six conditions corresponding to the steps of a simulated flight heating profile. Data were obtained using a conical nozzle test configuration in which the models were placed in a free jet downstream of the nozzle. Experimental surveys of arc-jet test flow with pitot pressure and heat flux probes were also performed at these arc-heater conditions, providing assessment of the flow uniformity and valuable data for the flow characterization. Two different sets of pitot pressure and heat probes were used: 9.1-mm sphere-cone probes (nose radius of 4.57 mm or 0.18 in) with null-point heat flux gages, and 15.9-mm (0.625 in) diameter hemisphere probes with Gardon gages. The probe survey data clearly show that the test flow in the TP3 facility is not uniform at most conditions (not even axisymmetric at some conditions), and the extent of non-uniformity is highly dependent on various arc-jet parameters such as arc current, mass flow rate, and the amount of cold-gas injection at the arc-heater plenum. The present analysis comprises computational fluid dynamics simulations of the nonequilibrium flowfield in the facility nozzle and test box, including the models tested. Comparisons of computations with the experimental measurements show reasonably good agreement except at the extreme low pressure conditions of the facility envelope.
Environment and time drive the links between the species richness and ecosystem multifunctionality from multitrophic freshwater mesocosms

Understanding the link between biodiversity and ecosystem functioning is imperative for ecosystem-based management. The role of multitrophic diversity in sustaining multifunctionality remains unclear, especially in highly diverse aquatic ecosystems. We performed a species-addition experiment consisting of one, two, three, and five species in simulated multitrophic ecosystems to evaluate biodiversity and ecosystem functioning relationships within and across trophic levels. Our results showed that there are positive species richness–productivity relationships within and across trophic levels. We found significant negative correlations between species richness and the cumulative variation of total phosphorus, and between species richness and ecosystem multifunctionality across trophic levels. Also, we found that the relationships between ecosystem multifunctionality and species richness within and across the trophic levels are mediated by a combination of environmental factors, including water temperature, dissolved oxygen, pH, irradiance, and time, rather than by species richness. Our results imply that species richness–ecosystem functioning relationships vary for different ecological functions; the individual ecosystem functions selected and the way multifunctionality calculated are critical when examining links between biodiversity and ecosystem multifunctionality. Our study highlights that multitrophic richness, such as for consumers, is crucial for driving ecosystem multifunctionality. Furthermore, our study implies that management practices for restoring the diversity of aquatic macrophytes in wetlands should consider not only macrophyte richness but also different functional groups and life-forms.
A Hybrid Finite-Element/Finite-Difference Scheme for Solving the 3-D Energy Equation in Transient Nonisothermal Fluid Flow over a Staggered Tube Bank

This article presents a hybrid finite-element/finite-difference approach. The approach solves the 3-D unsteady energy equation in nonisothermal fluid flow over a staggered tube bank with five tubes in the flow direction. The investigation used Reynolds numbers of 100 and 300, Prandtl number of 0.7, and pitch-to-diameter ratio of 1.5. An equilateral triangle (ET) tube pattern is considered for the staggered tube bank. The proposed hybrid method employs a 2-D Taylor-Galerkin finite-element method, and the energy equation perpendicular to the tube axis is discretized. On the other hand, the finite-difference technique discretizes the derivatives toward the tube axis. Weighting the 3-D, transient, convection-diffusion equation for a cube verifies the numerical results. The L2 norm of the error between numerical and exact solutions is also presented for three different hybrid meshes. A grid independence study for the energy equation preceded the final mesh. The outcome is found to be in acceptable concurrence with those from the previous studies. After the temperature field is attained, the local Nusselt number is computed for the tubes in the bundle at different times. The isotherms are also obtained at different times until a steady-state solution is reached. The numerical results converge to the exact results through refining the mesh. The implemented hybrid scheme requires less computation time compared with the conventional 3-D finite-element method, requiring less program coding.
Decreased macular choriocapillaris in thyroid-associated ophthalmopathy: focusing on chorioretinal folds with and without optic disc edema

Purpose The aim of this study was to evaluate the vessel density (VD) of the macular choriocapillaris (CC) and retina in thyroid-associated ophthalmopathy (TAO) patients with chorioretinal folds (CRFs) with and without optic disc edema (ODE) and the correlations of these characteristics with visual function. Method This was a cross-sectional study. Twenty TAO patients with CRFs (35 eyes) and 20 normal subjects (normal group, 40 eyes) were recruited at the Ophthalmology Department of the Sun Yat-sen Memorial Hospital from March 2018 to October 2022. Then, CRF patients were divided into two groups, the ODE and non-ODE groups (NODE), based on the presence or absence of ODE. All the patients underwent optical coherence tomography angiography (OCTA) and the VD of the macular CC and retina was computed. The correlation of VD and visual function was analyzed. Results Compared with the normal group, the macular whole-image VD in the retinal superficial layer (SLR-mwiVD: 49.82 ± 3.38 in the normal group, 42.44 ± 5.40 in the NODE group, and 42.51 ± 5.37 in the ODE group), deep layer (DLR-mwiVD: 51.05 ± 6.23 in the normal group, 45.71 ± 6.66 in the NODE group, and 46.31 ± 5.48 in the ODE group), and CC (CC-mwiVD: 70.23 ± 2.47 in the normal group, 68.04 ± 3.73 in the NODE group, and 63.09 ± 6.51 in the ODE group) was decreased in the NODE (all p < 0.05) and ODE group (all p < 0.01). There was no difference in these parameters except CC-mwiVD between the ODE and NODE groups. The CC-mwiVD in the ODE group (63.09 ± 6.51) was significantly reduced compared with that in the NODE group (68.04 ± 3.73, p = 0.004). All these VD parameters were negatively correlated with BCVA, VF-PSD, and P100 latency and positively associated with VF-MD, P100 amplitude, and HRR scores (all p < 0.05). Conclusions There was a significant decrease in the VD of the macular CC and retina of patients with CRFs with or without ODE, which was correlated with visual dysfunction. The VD of the macular CC in CRF patients with ODE was significantly reduced compared with that in the NODE group, but similar results were not observed in the retina.
The combination of salt and drought benefits selective ion absorption and nutrient use efficiency of halophyte Panicum antidotale

Soil salinity and water deficit often occur concurrently, but understanding their combined effects on plants’ ion regulation is limited. With aim to identify if introducing drought with salinity alleviates salt stress’s ionic effects, Panicum antidotale – a halophytic grass- was grown in the presence of single and combined stressors, i.e., drought and salt (low and high). Regulation of cations and anions along with the antioxidant capacity and modifications in leaf anatomy were investigated. Results showed a combination of low salt and drought minimally affected plant (dry) mass by improving the selective ions absorption and nutrient use efficiencies. The lowest ratio for efficiency of photosystem II and carbon assimilation (ΦPSII/ΦCO2) suggested less generation of reactive oxygen species, which were probably detoxified with constitutively performing antioxidant enzymes. In contrast, the combination of high salinity and drought escalated the adverse effects caused due to individual stressors. The selective ion absorption increased, but the non-selective ions transport caused an ionic imbalance indicating the highest ratio of Na+/K+. Although the area of mesophyll increased, a reduction in epidermis (cell number and area) predicted a mechanical injury prone to water loss in these plants. The compromised activity of antioxidant enzymes also suggested treatment-induced oxidative damage. Yet, the synergistic interaction between high salinity and drought was not detrimental to the survival of P. antidotale. Therefore, we suggest planting this grass in habitats with harsh environmental conditions to meet the increasing fodder demands without compromising agricultural lands’ productivity.
The deadly impact of COVID-19 among children from Latin America: The case of Ecuador

Background The SARS-CoV-2 pandemic remains a critical global health concern, with older adults being the most vulnerable group. Nonetheless, it is crucial to recognize that COVID-19 has caused numerous deaths in children worldwide. Emerging evidence indicates that infants and breastfeeding children, particularly those aged below one year, face a greater risk of hospitalization and mortality than older children with COVID-19. Objective This study aimed to describe the epidemiology of COVID-19 among children during the early phase of the pandemic in Ecuador. Methods We conducted a country-wide population-based analysis of the epidemiology of COVID-19, using incidence and mortality data reported from Ecuador between February 15, 2020 and May 14 2021. Measurements of frequency, central tendency, dispersion, and absolute differences were calculated for all categorical and continuous variables. Results At least 34,001 cases (23,587 confirmed cases, 5,315 probable and 5,099 suspected) and 258 COVID-19 related deaths have been reported among children in Ecuador during the first 16 months of the pandemic. The overall incidence rate was 612 cases per 100,000 children, the mortality rate was 3 per 100,000, while the case fatality rate was 0.76%. The highest risk group for infection was children and adolescents between 15 and 19 years of age; however, the highest mortality rate occurred in children under one year of age. The largest provinces, such as Pichincha, Guavas and Manabí, were the ones that reported the highest number of cases, 27%, 12.1% and 10.8%, respectively. Conclusions This study is the first to report on COVID-19 epidemics among children in Ecuador. Our findings reveal that younger children have a lower risk of SARS-CoV-2 infection, but a higher risk of mortality compared to older children and adolescents. Additionally, we observed significant disparities in infection rates and outcomes among children living in rural areas, those with comorbidities, and those from indigenous ethnic groups.
The role of innovation in environmental-related technologies and institutional quality to drive environmental sustainability

In this study, we examine the long-run effect of environmental-related technological innovation, institutional quality, trade openness, energy consumption, and economic growth on C O 2 emissions in APEC countries from 2004 to 2018. Firstly, panel unit root tests were used to explore the stationarity of each data series. The panel unit root test findings showed that all data series are stationary at the first difference. Second, the Westerlund panel cointegration test was used to deal with heterogeneity and cross-sectional dependence. Thirdly, the empirical findings from the augmented mean group (AMG) and common correlated effects mean group (CCEMG) estimators indicate that environmental-related technological innovation and institutional quality destructively affect C O 2 emissions. In contrast, trade openness, energy consumption, and economic growth positively impact C O 2 emissions. While causality analysis refers to the unidirectional causality runs from trade openness, energy consumption to C O 2 emission and bidirectional causality relationships are between technological innovation, institutional quality, GDP, C O 2 emission. Based on the findings, we proposed that APEC countries should raise investment in environmental-related technological innovation and improve the quality of the institutional environment to achieve sustainable development targets.
Time estimation during motor activity

Several studies on time estimation showed that the estimation of temporal intervals is related to the amount of attention devoted to time. This is explained by the scalar timing theory, which assumes that attention alters the number of pulses transferred by our internal clock to an accumulator that keeps track of the elapsed time. In a previous study, it was found that time underestimation during cognitive-demanding tasks was more pronounced while walking than while sitting, whereas no clear motor-induced effects emerged without a concurrent cognitive task. What remains unclear then is the motor interference itself on time estimation. Here we aim to clarify how the estimation of time can be influenced by demanding motor mechanisms and how different motor activities interact with concurrent cognitive tasks during time estimation. To this purpose, we manipulated simultaneously the difficulty of the cognitive task (solving arithmetic operations) and the motor task. We used an automated body movement that should require no motor or mental effort, a more difficult movement that requires some motor control, and a highly demanding movement requiring motor coordination and attention. We compared the effects of these three types of walking on time estimation accuracy and uncertainty, arithmetic performance, and reaction times. Our findings confirm that time estimation is affected by the difficulty of the cognitive task whereas we did not find any evidence that time estimation changes with the complexity of our motor task, nor an interaction between walking and the concurrent cognitive tasks. We can conclude that walking, although highly demanding, does not have the same effects as other mental tasks on time estimation.