Miracle-dz/UniFAR-FTUs huggingface dataset:
The Combined Effects of Moss-Dominated Biocrusts and Vegetation on Erosion and Soil Moisture and Implications for Disturbance on the Loess Plateau, China

Biological soil crusts (BSCs, or biocrusts) have important positive ecological functions such as erosion control and soil fertility improvement, and they may also have negative effects on soil moisture in some cases. Simultaneous discussions of the two-sided impacts of BSCs are key to the rational use of this resource. This study focused on the contribution of BSCs while combining with specific types of vegetation to erosion reduction and their effects on soil moisture, and it addressed the feasibility of removal or raking disturbance. Twelve plots measuring 4 m × 2 m and six treatments (two plots for each) were established on a 15° slope in a small watershed in the Loess Plateau using BSCs, bare land (as a control, BL), Stipa bungeana Trin. (STBU), Caragana korshinskii Kom. (CAKO), STBU planted with BSCs (STBU+BSCs) and CAKO planted with BSCs (CAKO+BSCs). The runoff, soil loss and soil moisture to a depth of 3 m were measured throughout the rainy season (from June to September) of 2010. The results showed that BSCs significantly reduced runoff by 37.3% and soil loss by 81.0% and increased infiltration by 12.4% in comparison with BL. However, when combined with STBU or CAKO, BSCs only made negligible contributions to erosion control (a runoff reduction of 7.4% and 5.7% and a soil loss reduction of 0.7% and 0.3%). Generally, the soil moisture of the vegetation plots was lower in the upper layer than that of the BL plots, although when accompanied with a higher amount of infiltration, this soil moisture consumption phenomenon was much clearer when combining vegetation with BSCs. Because of the trivial contributions from BSCs to erosion control and the remaining exacerbated consumption of soil water, moderate disturbance by BSCs should be considered in plots with adequate vegetation cover to improve soil moisture levels without a significant erosion increase, which was implied to be necessary and feasible.
Evaluating the different laser fragmentation patterns used in laser cataract surgeries in terms of effective phacoemulsification time and power

Purpose To evaluate the effects of the different fragmentation patterns for the lens nucleus in terms of the effective phacoemulsification time (EPT) and power. Setting Shinagawa LASIK Center, Tokyo, Japan. Design Comparison study. Methods Seventy-one eyes of 71 patients had preoperative lens opacity grading based on the Emery-Little Classification (Grade 1 and Grade 2). Eyes underwent femtosecond laser-assisted cataract surgery (Catalys™ Precision Laser System), for capsulotomy and lens fragmentation. For the lens fragmentation, either the quadrants softened (Quadrant) or the quadrants complete (Complete) pattern was used. The mean EPT and phacoemulsification (phaco) power for each cutting pattern of Grades 1 and 2 cataracts were evaluated. Results The mean EPT was 28.96 seconds in the Quadrant Group and 16.31 seconds in the Complete Group (P=0.006). The mean phaco power was 8.07% in the Quadrant Group and 4.77% in the Complete Group (P=0.0002). Comparing the Quadrant and Complete Groups of Grade 1 cataract showed no significant difference in EPT (P=0.16), but showed a significant difference in phaco power (P=0.033). Comparing the Quadrant and Complete patterns of Grade 2 cataract showed significant differences in both EPT (P=0.012) and phaco power (P=0.003). Using the Complete pattern showed a 44.7% reduction in EPT and a 40.9% reduction in phaco power when compared to the Quadrant Group. Conclusion Using the smaller fragmentation pattern in femtosecond laser cataract surgery, the phaco time and power were reduced significantly when compared to the procedure with the larger fragmentation pattern.
Bifrontal transcranial direct current stimulation modulates tinnitus intensity and tinnitus‐distress‐related brain activity

Bifrontal transcranial direct current stimulation (tDCS), with the anodal electrode overlying the right and the cathodal electrode overlying the left dorsolateral prefrontal cortex, has been shown to suppress tinnitus significantly in 30% of patients. The source localized resting‐state electrical activity is recorded before and after bifrontal tDCS in patients who respond to tDCS to unravel the mechanism by which tDCS suppresses tinnitus. The present electroencephalography study (N = 12) provides support for the ability of bifrontal tDCS to suppress tinnitus intensity and tinnitus‐related distress by modulation of the pregenual anterior cingulate cortex, parahippocampal area and right primary auditory cortex in resting‐state spontaneous brain activity. These findings provide direct support for tDCS having an impact not only directly on the underlying dorsolateral prefrontal cortex but also indirectly on functionally connected brain areas relevant for tinnitus distress and tinnitus intensity, respectively.
Integrating post-Newtonian equations on graphics processing units

We report on early results of a numerical and statistical study of binary black hole inspirals. The two black holes are evolved using post-Newtonian approximations starting with initially randomly distributed spin vectors. We characterize certain aspects of the distribution shortly before merger. In particular we note the uniform distribution of black hole spin vector dot products shortly before merger and a high correlation between the initial and final black hole spin vector dot products in the equal-mass, maximally spinning case. More than 300 million simulations were performed on graphics processing units, and we demonstrate a speed-up of a factor 50 over a more conventional CPU implementation.
Predators are less likely to misclassify masquerading prey when their models are present

Masquerading animals have evolved striking visual resemblances to inanimate objects. These animals gain protection from their predators not simply by avoiding detection, but by causing their predators to misclassify them as the ‘models’ that they appear to resemble. Using domestic chicks as predators and twig-mimicking caterpillars as prey, we demonstrated that masquerading prey were more likely to be misclassified as their models when viewed in isolation from their models than when viewed alongside examples of their model, although they benefitted from masquerade to some extent in both conditions. From this, we predict a selection pressure on masqueraders to use microhabitats that reduce the risk of them being viewed simultaneously with examples of their model, and/or to more closely resemble their model in situations where simultaneous viewing is commonplace.
Genetic Relationships of Ethnic Minorities in Southwest China Revealed by Microsatellite Markers

Population migrations in Southwest and South China have played an important role in the formation of East Asian populations and led to a high degree of cultural diversity among ethnic minorities living in these areas. To explore the genetic relationships of these ethnic minorities, we systematically surveyed the variation of 10 autosomal STR markers of 1,538 individuals from 30 populations of 25 ethnic minorities, of which the majority were chosen from Southwest China, especially Yunnan Province. With genotyped data of the markers, we constructed phylogenies of these populations with both DA and DC measures and performed a principal component analysis, as well as a clustering analysis by structure. Results showed that we successfully recovered the genetic structure of analyzed populations formed by historical migrations. Aggregation patterns of these populations accord well with their linguistic affiliations, suggesting that deciphering of genetic relationships does in fact offer clues for study of ethnic differentiation.
Presence of the tet(O) Gene in Erythromycin- and Tetracycline-Resistant Strains of Streptococcus pyogenes and Linkage with either the mef(A) or the erm(A) Gene

ABSTRACT Sixty-three recent Italian clinical isolates of Streptococcus pyogenes resistant to both erythromycin (MICs ≥ 1 μg/ml) and tetracycline (MICs ≥ 8 μg/ml) were genotyped for macrolide and tetracycline resistance genes. We found 19 isolates carrying the mef(A) and the tet(O) genes; 25 isolates carrying the erm(A) and tet(O) genes; and 2 isolates carrying the erm(A), tet(M), and tet(O) genes. The resistance of all erm(A)-containing isolates was inducible, but the isolates could be divided into two groups on the basis of erythromycin MICs of either >128 or 1 to 4 μg/ml. The remaining 17 isolates included 15 isolates carrying the erm(B) gene and 2 isolates carrying both the erm(B) and the mef(A) genes, with all 17 carrying the tet(M) gene. Of these, 12 carried Tn916-Tn1545-like conjugative transposons. Conjugal transfer experiments demonstrated that the tet(O) gene moved with and without the erm(A) gene and with the mef(A) gene. These studies, together with the results of pulsed-field gel electrophoresis experiments and hybridization assays with DNA probes specific for the tet(O), erm(A), and mef(A) genes, suggested a linkage of tet(O) with either erm(A) or mef(A) in erythromycin- and tetracycline-resistant S. pyogenes isolates. By amplification and sequencing experiments, we detected the tet(O) gene ca. 5.5 kb upstream from the mef(A) gene. This is the first report demonstrating the presence of the tet(O) gene in S. pyogenes and showing that it may be linked with another gene and can be moved by conjugation from one chromosome to another.
Developmental Cognitive Neuroscience Different Developmental Trajectories for Anticipation and Receipt of Reward during Adolescence

Keywords: Adolescence Development fMRI Nucleus accumbens Reward Striatum a b s t r a c t Typical adolescent behaviour such as increased risk-taking and novelty-seeking is probably related to developmental changes in the brain reward system. This functional MRI study investigated how brain activation related to two components of reward processing (Reward Anticipation and Reward Outcome) changes with age in a sample of 39 children, adolescents and young adults aged 10–25. Our data revealed age-related changes in brain activity during both components of reward processing. Activation related to Reward Anticipation increased with age, while activation related to Reward Outcome decreased in various regions of the reward network. This shift from outcome to anticipation was confirmed by subsequent analyses showing positive correlations between age and the difference in activation between Reward Anticipation and Reward Outcome. The shift was predominantly present in striatal regions and was accompanied by a significant effect of age on behaviour, with older participants showing more response speeding on potentially rewarding trials than younger participants. This study provides evidence for functional changes in the reward system which may underlie typical adolescent behaviour.
Historical declines in tuberculosis in England and Wales: improving social conditions or natural selection?

UNLABELLED A reinvestigation of the relationship between the decline of tuberculosis and improvement in social conditions in England and Wales during Victorian times. DESIGN A retrospective study using data published in the annual reports of the Registrar General from 1853 to 1910. The diseases studied, in addition to tuberculosis were, dysentery and cholera including their total and infant mortality. Social conditions were evaluated from earnings and population density per house. Tuberculosis mortality declined at an annual average rate of 1.71% (95%CI 0.77 to 2.63) whereas total mortality, infant mortality and mortality from cholera and dysentery and house population density showed no statistically significant decline over the same period. Real earnings increased by 1.05% (C10.29 to 1.81). Improving social conditions do not provide the total explanation for the decline in tuberculosis during Victorian times. Other factors, principally natural selection, probably played a role. Part of the current increase in tuberculosis may be caused by effective drug therapy eliminating natural selection.
Park City Lectures on Mechanics, Dynamics, and Symmetry

In these ve lectures, I cover selected items from the following topics: 1. Reduction theory for mechanical systems with symmetry, 2. Stability, bifurcation and underwater vehicle dynamics, 3. Systems with rolling constraints and locomotion, 4. Optimal control and stabilization of balance systems, 5. Variational integrators. Each topic itself could be expanded into several lectures, but I limited myself to what I could reasonably explain in the allotted time. The hope is that the overview is informative enough so that the reader can understand the fundamental ideas and can intelligently choose from the literature for additional details on topics of interest. Compatible with the theme of the PCI graduate school, I assume that the readers are familiar with the elements of geometric mechanics, including the basics of symplectic and Poisson geometry. The reader can find the needed background in, for example, Marsden and Ratiu [1998].
Environmental impacts of inter-basin water transfer on water quality in the Jundiaí-Mirim river, south-east Brazil

Large-scale water transfer projects can be an important way of mitigating water scarcity and have been adopted worldwide. Nevertheless, investments in massive infrastructure, negative environmental impacts and restrictive legislation have required water managers to adopt new approaches, such as small-scale inter-basin water transfer (SSIWT), especially in industrial and urbanized regions. However, there is a lack of research concerning environmental impact assessments of SSIWT to support decisionmaking, notably in developing countries (such as Brazil). The main goal of this research was to assess the environmental impacts of water transfer on the quality of surface water in the Jundiaí-Mirim river basin, south-east Brazil. Water samples were collected along the Jundiaí-Mirim River in September 2013 (in the absence of SSIWT) and in September 2014 (during SSIWT) for determining the following parameters: pH, temperature, turbidity, electrical conductivity (EC), dissolved oxygen (DO), total organic carbon (TOC), dissolved organic carbon (DOC), total phosphorus (TP), total nitrogen (TN), chloride (Cl), chlorophyll-a (Chl-a) and dissolved and total metals (Al, Cd, Cu, Fe, Mg and Mn). Descriptive statistics and the paired Student’s t-test (p < 0.05) were used to test the hypothesis that there was an effect of SSIWT on water quality. The results showed impacts due to the transfer of ions from the Atibaia River to the Jundiaí-Mirim River, as well as the degradation of riverbanks, which significantly (p < 0.05) influenced DO, TOC, DOC, TN, Cl, Al, Fe and Mg concentrations. A positive impact on the trophic state was observed due to the increased flow caused by the water transfer, which acted to flush the river and reservoir. The findings provide important information on the environmental performance of small-scale hydraulic operations, which should assist decision-makers in establishing strategies to reduce negative environmental impacts.
Intake estimates of naturally occurring phytosterols using deterministic and probabilistic methods in a representative Irish population

Intakes of naturally occurring phytosterols were estimated in the Irish population using phytosterol concentration data obtained from the published literature. Both deterministic and probabilistic approaches were used. Concentration data were applied to dietary intake data as assessed in the North/South Ireland Food Consumption Survey (n = 1,379). With the probabilistic approach, a uniform distribution was used in place of fixed values to reflect variability and uncertainty in phytosterol concentrations. Foods consumed were also categorized into 19 food groups, and the phytosterol intake per food group was calculated. Using the deterministic approach, mean phytosterol intake for the total population was 254 mg/day (28.1 mg/1,000 kJ). Using the probabilistic approach, slightly higher mean phytosterol intakes of 287 mg/day were found. In terms of food groups, ‘bread and bread-rolls’, ‘vegetables and vegetable dishes’ and ‘spreading fat and oils’ were the top three contributing food groups to phytosterol intakes. This study has shown how both deterministic and probabilistic approaches may be used to determine phytosterol intakes in a population.
Intake of Protein Plus Carbohydrate during the First Two Hours after Exhaustive Cycling Improves Performance the following Day

Intake of protein immediately after exercise stimulates protein synthesis but improved recovery of performance is not consistently observed. The primary aim of the present study was to compare performance 18 h after exhaustive cycling in a randomized diet-controlled study (175 kJ·kg-1 during 18 h) when subjects were supplemented with protein plus carbohydrate or carbohydrate only in a 2-h window starting immediately after exhaustive cycling. The second aim was to investigate the effect of no nutrition during the first 2 h and low total energy intake (113 kJ·kg-1 during 18 h) on performance when protein intake was similar. Eight endurance-trained subjects cycled at 237±6 Watt (~72% VO2max) until exhaustion (TTE) on three occasions, and supplemented with 1.2 g carbohydrate·kg-1·h-1 (CHO), 0.8 g carbohydrate + 0.4 g protein·kg-1·h-1 (CHO+PRO) or placebo without energy (PLA). Intake of CHO+PROT increased plasma glucose, insulin, and branch chained amino acids, whereas CHO only increased glucose and insulin. Eighteen hours later, subjects performed another TTE at 237±6 Watt. TTE was increased after intake of CHO+PROT compared to CHO (63.5±4.4 vs 49.8±5.4 min; p<0.05). PLA reduced TTE to 42.8±5.1 min (p<0.05 vs CHO). Nitrogen balance was positive in CHO+PROT, and negative in CHO and PLA. In conclusion, performance was higher 18 h after exhaustive cycling with intake of CHO+PROT compared to an isocaloric amount of carbohydrate during the first 2 h post exercise. Intake of a similar amount of protein but less carbohydrate during the 18 h recovery period reduced performance.
PON1 as a model for integration of genetic, epigenetic, and expression data on candidate susceptibility genes

Abstract Recent genome- and epigenome-wide studies demonstrate that the DNA methylation is controlled in part by genetics, highlighting the importance of integrating genetic and epigenetic data. To better understand molecular mechanisms affecting gene expression, we used the candidate susceptibility gene paraoxonase 1 (PON1) as a model to assess associations of PON1 genetic polymorphisms with DNA methylation and arylesterase activity, a marker of PON1 expression. PON1 has been associated with susceptibility to obesity, cardiovascular disease, and pesticide exposure. In this study, we assessed DNA methylation in 18 CpG sites located along PON1 shores, shelves, and its CpG island in blood specimens collected from newborns and 9-year-old children participating (n = 449) in the CHAMACOS birth cohort study. The promoter polymorphism, PON1-108, was strongly associated with methylation, particularly for CpG sites located near the CpG island (P << 0.0005). Among newborns, these relationships were even more pronounced after adjusting for blood cell composition. We also observed significant decreases in arylesterase activity with increased methylation at the same nine CpG sites at both ages. Using causal mediation analysis, we found statistically significant indirect effects of methylation (β(95% confidence interval): 6.9(1.5, 12.4)) providing evidence that DNA methylation mediates the relationship between PON1-108 genotype and PON1 expression. Our findings show that integration of genetic, epigenetic, and expression data can shed light on the functional mechanisms involving genetic and epigenetic regulation of candidate susceptibility genes like PON1.
Coded caching with nonuniform demands

We consider a network consisting of a file server connected through a shared link to a number of users, each equipped with a cache. Knowing the popularity distribution of the files in the database, the goal is to optimally populate the caches such as to minimize the expected load of the shared link. For a single user, it is well known that caching the most popular files is optimal in this setting. However we show here that this is no longer the case for multiple users. Indeed, caching only the most popular files can be highly suboptimal. Instead, a fundamentally different approach is needed, in which the cache contents are used as side information for coded communication over the shared link. We propose such a coded caching scheme and prove that it is close to optimal.
The mechanics of granitoid systems and maximum entropy production rates

A model for the formation of granitoid systems is developed involving melt production spatially below a rising isotherm that defines melt initiation. Production of the melt volumes necessary to form granitoid complexes within 104–107 years demands control of the isotherm velocity by melt advection. This velocity is one control on the melt flux generated spatially just above the melt isotherm, which is the control valve for the behaviour of the complete granitoid system. Melt transport occurs in conduits initiated as sheets or tubes comprising melt inclusions arising from Gurson–Tvergaard constitutive behaviour. Such conduits appear as leucosomes parallel to lineations and foliations, and ductile and brittle dykes. The melt flux generated at the melt isotherm controls the position of the melt solidus isotherm and hence the physical height of the Transport/Emplacement Zone. A conduit width-selection process, driven by changes in melt viscosity and constitutive behaviour, operates within the Transport Zone to progressively increase the width of apertures upwards. Melt can also be driven horizontally by gradients in topography; these horizontal fluxes can be similar in magnitude to vertical fluxes. Fluxes induced by deformation can compete with both buoyancy and topographic-driven flow over all length scales and results locally in transient ‘ponds’ of melt. Pluton emplacement is controlled by the transition in constitutive behaviour of the melt/magma from elastic–viscous at high temperatures to elastic–plastic–viscous approaching the melt solidus enabling finite thickness plutons to develop. The system involves coupled feedback processes that grow at the expense of heat supplied to the system and compete with melt advection. The result is that limits are placed on the size and time scale of the system. Optimal characteristics of the system coincide with a state of maximum entropy production rate.