Miracle-dz/UniFAR-FTUs huggingface dataset:
The Ghost of the Hawk: Top Predator Shaping Bird Communities in Space and Time

Despite the wide recognition that strongly interacting species can influence distributions of other species, species interactions are often disregarded when assessing or projecting biodiversity distributions. In particular, it remains largely uncharted the extent to which the disappearance of a keystone species cast repercussions in the species composition of future communities. We tested whether an avian top predator can exert both positive and negative effects on spatial distribution of other species, and if these effects persist even after the predator disappeared. We acquired bird count data at different distances from occupied and non-occupied nests of Northern goshawks Accipiter gentilis. Using a Bayesian joint species distribution model, we found that large bird species (preferred prey) are less abundant in the proximity of nests occupied by goshawks, whereas smaller species –expected to get protection from subordinate predators displaced by goshawks– more often showed an opposite association. These spatial differences level off gradually, but still persist for years after the goshawks have disappeared. This indicates that the composition of local bird populations and communities might be conditional on past species interactions. Therefore, endeavors centered around species distributions could largely benefit from acknowledging the local extinction of keystone species.
Genotypes and Phenotypes of MEF2C Haploinsufficiency Syndrome: New Cases and Novel Point Mutations

Aim: MEF2C haploinsufficiency syndrome (MCHS) is a severe neurodevelopmental disorder. We describe the clinical phenotypes and genotypes of seven patients with MCHS to enhance the understanding of clinical manifestations and genetic alterations associated with MCHS. Method: Seven patients (6 females and 1 male, aged between 2 years 5 months and 6 years) who had MEF2C mutations, and their parents underwent trio-based whole-exome sequencing; subsequently, their clinical features were assessed. A literature review of patients with MCHS was performed by searching the PubMed and Online Mendelian Inheritance in Man databases. Results: Seven mutations were identified, of which six were unreported in the past; of the reported cases, five patients had de novo mutations but two had an undefined inheritance pattern. All patients presented delays in developmental milestones, severe intellectual disabilities and lack of speech. Six patients exhibited infantile hypotonia, five patients experienced stereotypic movements and were unable to walk, four patients exhibited poor eye contact indicative of autism and two showed poor performance. While six patients experienced seizure, five among them became seizure free after receiving anti-seizure medicine. Three patients showed a regression in their development, whereas the mothers of two patients exhibited mosaicism but were healthy without any abovementioned symptoms. Interpretation: Regression was not a common phenomenon but occurred in MCHS. The prognosis of MCHS patients with epilepsy was good, but most patients can achieve a seizure-free status. Healthy people may have low-level mosaicism and carry a pathogenic MEF2C mutation.
Using Choice Experiments to Estimate the Value of Differentiated Cow's Milk in Puerto Rico

In Puerto Rico, we use a choice experiment method through in-person interviews to estimate consumer willingness to pay (WTP) for a half gallon of cow's milk that is produced locally, friendly to the environment and with ethics in animal management. The results from a random parameters logit model show that consumers are willing to pay a premium of up to 41% for differentiated milk, indicating a potential market for these products. We also find that consumer's income and education, and number of dependents affect WTP estimates. Implications for the development of differentiated milk products are discussed.
A 10-Day-Old Murine Model of Coxsackievirus A6 Infection for the Evaluation of Vaccines and Antiviral Drugs

Coxsackievirus A6 (CVA6) is recognized as a major enterovirus type that can cause severe hand, foot, and mouth disease and spread widely among children. Vaccines and antiviral drugs may be developed more effectively based on a stable and easy-to-operate CVA6 mouse infection model. In this study, a wild CVA6-W strain was sub-cultured in newborn mice of different ages (in days), for adaptation. Therefore, a CVA6-A mouse-adapted strain capable of stably infecting the mice was generated, and a fatal model was built. As the result indicated, CVA6-A could infect the 10-day-old mice to generate higher levels of IFN-γ, IL-6, and IL-10. The mice infected with CVA6-A were treated with IFN-α1b at a higher dose, with complete protection. Based on this strain, an animal model with active immunization was built to evaluate antiviral protection by active immunization. The three-day-old mice were pre-immunized with inactivated CVA6 thereby generating IgM and IgG antibodies within 7 days that enabled complete protection of the pre-immunized mice following the CVA6 virus challenge. There were eight mutations in the genome of CVA6-A than in that of CVA6-W, possibly attributed to the virulence of CVA6 in mice. Briefly, the CVA6 infection model of the 10-day-old mice built herein, may serve as an applicable preclinical evaluation model for CVA6 antiviral drugs and vaccine study.
Phosphorus Leaching From Naturally Structured Forest Soils Is More Affected by Soil Properties Than by Drying and Rewetting

Foliar phosphorus (P) concentrations in beech trees are decreasing in Europe, potentially leading to reductions in the trees’ growth and vitality. In the course of climate change, drying and rewetting (DRW) cycles in forest soils are expected to intensify. As a consequence, P leakage from the root zone may increase due to temporarily enhanced organic matter mineralization. We addressed the questions whether sites with different soil properties, including P pools, differ in their susceptibility to DRW-induced P leaching, and whether this is affected by the DRW intensity. A greenhouse experiment was conducted on naturally structured soil columns with beech saplings from three sites representing a gradient of soil P availability. Four DRW cycles were conducted by air-drying and irrigating the soils over 4 hours (fast rewetting) or 48 hours (slow rewetting). Leachates below the soil columns were analyzed for total P, and molybdate reactive P (considered as inorganic P). The difference was considered to represent organically bound P. Boosted regression trees were used to examine the effects of DRW and soil characteristics on P leaching. Contrary to a first hypothesis, that P leaching increases upon rewetting with the intensity of the preceding desiccation phase, intense soil drying (to pF 3.5 to 4.5) did not generally increase P leakage compared to moderate drying (to pF 2 to 3). However, we observed increased inorganic P concentrations and decreased organic P concentrations in leachates after drying to matric potentials above pF 4. Also against our expectations, fast rewetting did not lead to higher leakage of P than slow rewetting. However, the results confirmed our third hypothesis that the site poorest in P, where P recycling is mainly limited to the humus layer and the uppermost mineral soil, lost considerably more P during DRW than the other two sites. The results of our experiment with naturally structured soils imply that intensified drying and rewetting cycles, as predicted by climate-change scenarios, may not per se lead to increased P leaching from forest soils. Soil properties such as soil organic carbon content and texture appear to be more important predictors of P losses.
Learning Actions From Natural Language Instructions Using an ON-World Embodied Cognitive Architecture

Endowing robots with the ability to view the world the way humans do, to understand natural language and to learn novel semantic meanings when they are deployed in the physical world, is a compelling problem. Another significant aspect is linking language to action, in particular, utterances involving abstract words, in artificial agents. In this work, we propose a novel methodology, using a brain-inspired architecture, to model an appropriate mapping of language with the percept and internal motor representation in humanoid robots. This research presents the first robotic instantiation of a complex architecture based on the Baddeley's Working Memory (WM) model. Our proposed method grants a scalable knowledge representation of verbal and non-verbal signals in the cognitive architecture, which supports incremental open-ended learning. Human spoken utterances about the workspace and the task are combined with the internal knowledge map of the robot to achieve task accomplishment goals. We train the robot to understand instructions involving higher-order (abstract) linguistic concepts of developmental complexity, which cannot be directly hooked in the physical world and are not pre-defined in the robot's static self-representation. Our proposed interactive learning method grants flexible run-time acquisition of novel linguistic forms and real-world information, without training the cognitive model anew. Hence, the robot can adapt to new workspaces that include novel objects and task outcomes. We assess the potential of the proposed methodology in verification experiments with a humanoid robot. The obtained results suggest robust capabilities of the model to link language bi-directionally with the physical environment and solve a variety of manipulation tasks, starting with limited knowledge and gradually learning from the run-time interaction with the tutor, past the pre-trained stage.
Formation of Oil-Particle-Aggregates: Numerical Model Formulation and Calibration

When oil spills occur in turbid waters, the oil droplets and mineral grains can combine to form oil-particle aggregates (OPAs). The formation of OPAs impacts the vertical transport of both the oil and the mineral grains; especially increasing deposition of oil to the seabed. Though the coastal oceans can be very turbid, to date, few numerical ocean models have accounted for aggregation processes that form OPAs. However, interactions between oil and mineral aggregates may be represented using techniques developed to account for sediment aggregation. As part of Consortium for Simulation of Oil Microbial Interactions in the Ocean (CSOMIO), we modified an existing, population dynamics-based sediment flocculation model to develop OPAMOD, a module that accounts for the formation of OPAs. A zero-dimensional model using OPAMOD is shown to be capable of reproducing the size distribution of aggregates from existing laboratory experimental results. Also using the zero-dimensional model, sensitivity tests were performed on two model parameters, the fractal dimension and collision efficiency. Results showed that fractal dimension played a role in the OPA size distribution by influencing the effective particle density, which modified the number concentration of flocs for a given mass concentration. However, the modeled particle characteristics and oil sequestration were relatively insensitive to collision efficiency. To explore OPA formation for an outer continental shelf site, two simulations were conducted using a one-dimensional (vertical) implementation of the model. One scenario had high sediment concentration near the seabed to mimic storm-induced resuspension. The other scenario represented river plume sediment delivery by having high sediment concentration in surface waters. Results showed that OPA formation was sensitive to the vertical distribution of suspended sediment, with the river plume scenario creating more OPA, and sequestering more oil within OPA than the storm resuspension scenario. OPAMOD was developed within the Coupled Ocean-Atmosphere-Wave-and-Sediment Transport (COAWST) modeling system, therefore the methods and parameterizations from this study are transferrable to a three-dimensional coupled oil-sediment-microbial model developed by CSOMIO within the COAWST framework.
Impact of Preinjury Antithrombotic Therapy on 30–Day Mortality in Older Patients Hospitalized With Traumatic Brain Injury (TBI)

Objective: Elderly patients are frequently in need of antithrombotic therapy for reducing thrombotic events. The association between antithrombotic drugs and survival after traumatic brain injury (TBI) is, nevertheless, unclear. Methods: This retrospective study included patients ≥65 years admitted to a Norwegian Level 1 trauma center with TBI identified on cerebral computed tomography (cerebral-CT) during 2014–2019. Preinjury use of antiplatelets and anticoagulants was compared to the prescription rate in the general Norwegian population. The primary outcome was 30-day mortality. Uni- and multivariate logistic regression analyses estimated the association between the use of antithrombotic drugs and mortality. Results: The study includes 832 consecutive TBI patients ≥65 years. The median age was 76 years, 58% were males, 51% had moderate or severe TBI, and 39% had multiple traumas. Preinjury use of antithrombotics was registered in 471/832 (55.6%) patients; antiplatelet therapy alone in 268, anticoagulant therapy alone in 172, and combined antiplatelet and anticoagulant therapy in 31. Antiplatelet use did not differ between the study cohort and the general Norwegian population ≥65 years (31 vs. 31%, p = 0.87). Anticoagulant therapy was used more commonly in the study cohort than in the general Norwegian population (24 vs. 19%, p = 0.04). Combined use of antiplatelet and anticoagulant therapy was significantly associated with 30-day mortality, while preinjury antiplatelet or anticoagulation treatment alone was not. No difference in 30-day mortality between patients using VKA, DOACs, or LMWH was encountered. Conclusions: In this cohort, neither antiplatelet nor anticoagulant therapy alone was associated with increased 30-day mortality. Anticoagulant use was more prevalent among TBI patients than the general population, suggesting that anticoagulation might contribute to the initiation of intracranial bleeding after blunt head trauma. Combined antiplatelet and anticoagulant therapy posed increased risk of 30-day mortality.
Cervicocephalic Spotty Calcium for the Prediction of Coronary Atherosclerosis in Patients With Acute Ischemic Stroke

Purpose: To investigate the characteristics of cervicocephalic spotty calcium (SC) and coronary atherosclerosis in patients with acute ischemic stroke (AIS) and to assess the predictive value of SC for coronary atherosclerosis using combined coronary and cervicocephalic CTA. Materials and Methods: Patients with AIS (n = 70) confirmed by brain MRI or CT and patients with asymptomatic carotid atherosclerosis (n = 58) confirmed by carotid ultrasonography were enrolled in our study. Subjects in both groups underwent combined coronary and cervicocephalic CTA. SC was used to evaluate cervicocephalic atherosclerosis. Coronary artery stenosis (CAS) ≥ 50% by segment and coronary artery calcium score (CACS) were used to evaluate coronary atherosclerosis. The SC frequency and the difference in coronary atherosclerosis between the two groups were compared, and the correlation between SC and coronary atherosclerosis was analyzed. Independent factors for CAS ≥ 50% were assessed via logistic regression analysis. Receiver operating characteristic curve analysis was performed to evaluate the added value of SC for predicting CAS ≥ 50%. Results: Both SC and the CACS were significantly higher in the Stroke group than in the Control group (total SC count: 6.83 ± 4.34 vs. 2.98 ± 2.87, P < 0.05; CACS: 477.04 ± 798.01 vs. 136.31 ± 205.65, P < 0.05). There were significant differences in the presence of CAS ≥ 50% (61.4 vs. 27.6%, P < 0.001). SC and coronary atherosclerosis were significantly correlated for both the CACS and CAS ≥ 50% (r = 0.746 and 0.715, respectively; P < 0.001). SC was an independent predictor for CAS ≥ 50%. Conclusion: SC correlates significantly with the CACS and could serve as an independent predictor of CAS ≥ 50% in patients with AIS, which suggests that combined cerebrovascular and cardiovascular assessments are of importance for such patients.
Screening and Mapping for Head Blast Resistance in a Panel of CIMMYT and South Asian Bread Wheat Germplasm

Wheat blast (WB) is a destructive disease in South America and its first outbreak in Bangladesh in 2016 posed a great risk to food security of South Asian countries. A genome wide association study (GWAS) was conducted on a diverse panel of 184 wheat genotypes from South Asia and CIMMYT. Phenotyping was conducted in eight field experiments in Bolivia and Bangladesh and a greenhouse experiment in the United States. Genotypic data included 11,401 SNP markers of the Illumina Infinium 15K BeadChip and four additional STS markers on the 2NS/2AS translocation region. Accessions with stable WB resistance across experiments were identified, which were all 2NS carriers. Nevertheless, a dozen moderately resistant 2AS lines were identified, exhibiting big variation among experiments. Significant marker-trait associations (MTA) were detected on chromosomes 1BS, 2AS, 6BS, and 7BL; but only MTAs on 2AS at the 2NS/2AS translocation region were consistently significant across experiments. The resistant accessions identified in this study could be used in production in South Asian countries as a preemptive strategy to prevent WB outbreak.
Volume diffusion of hafnium in tungsten single crystals

The temperature dependence of the volume diffusion coefficient for hafnium in single-crystal tungsten was studied in a temperature range of 2023 to 2573 K by secondary-ion mass spectrometry. The parameters of the Arrhenius dependence for the volume-diffusion coefficients of hafnium in tungsten single crystals were estimated to be Q = (557.8 ± 0.5) kJ/mol and D 0 = (2.19 ± 0.07) x 10 -4 m 2 /s. The activation enthalpies for volume diffusion of 5d elements (Hf, Ta, W, Re, Os, and Ir) in tungsten depend parabolically on the difference in the valences of the impurity and host atoms.
Heavy Metal Tolerance Genes Associated With Contaminated Sediments From an E-Waste Recycling River in Southern China

Heavy metal pollution that results from electronic waste (e-waste) recycling activities has severe ecological environmental toxicity impacts on recycling areas. The distribution of heavy metals and the impact on the bacteria in these areas have received much attention. However, the diversity and composition of the microbial communities and the characteristics of heavy metal resistance genes (HMRGs) in the river sediments after long-term e-waste contamination still remain unclear. In this study, eight river sediment samples along a river in a recycling area were studied for the heavy metal concentration and the microbial community composition. The microbial community consisted of 13 phyla including Firmicutes (ranging from 10.45 to 36.63%), Proteobacteria (11.76 to 32.59%), Actinobacteria (14.81 to 27.45%), and unclassified bacteria. The abundance of Firmicutes increased along with the level of contaminants, while Actinobacteria decreased. A canonical correspondence analysis (CCA) showed that the concentration of mercury was significantly correlated with the microbial community and species distribution, which agreed with an analysis of the potential ecological risk index. Moreover, manually curated HMRGs were established, and the HMRG analysis results according to Illumina high-throughput sequencing showed that the abundance of HMRGs was positively related to the level of contamination, demonstrating a variety of resistance mechanisms to adapt, accommodate, and live under heavy metal-contaminated conditions. These findings increase the understanding of the changes in microbial communities in e-waste recycling areas and extend our knowledge of the HMRGs involved in the recovery of the ecological environment.
Do Impairments in Visual Functions Affect Skiing Performance?

Nordic and alpine skiing-related visual tasks such as identifying hill contours, slope characteristics, and snow conditions increase demands on contrast processing and other visual functions. Prospective observational studies were conducted to assess the relationships between skiing performance and a broad range of visual functions in nordic and alpine skiers with vision impairments. The study hypothesized that contrast sensitivity (CS), visual acuity (VA), and visual field (VF) would be predictive of skiing performance. Binocular static VA, CS, light sensitivity, glare sensitivity, glare recovery, dynamic VA, translational and radial motion perception, and VF were assessed in elite Para nordic (n = 26) and Para alpine (n = 15) skiers. Skiing performance was assessed based on skiers’ raw race times. Performance on the visual function tests was compared with skiing performances using Kendall’s correlations (with and without Bonferroni–Holm corrections) and linear multivariable regressions (p < 0.05 considered significant). None of the vision variables were significantly correlated with performance in Para nordic or Para alpine skiing after Bonferroni–Holm corrections were applied. Before applying the corrections, VF extent (ρ = -0.37, p = 0.011), and static VA (ρ = 0.26, p = 0.066) demonstrated the strongest correlations with Para nordic skiing performance; in Para alpine skiing, static VA and CS demonstrated the strongest correlations with downhill (static VA: ρ = 0.54, p = 0.046, CS: ρ = -0.50, p = 0.06), super G (static VA: ρ = 0.50, p = 0.007, CS: ρ = -0.51, p = 0.017), and giant slalom (static VA: ρ = 0.57, p = 0.01, CS: ρ = -0.46, p = 0.017) performance. Dynamic VA and VF were significantly associated with downhill (ρ = 0.593, p = 0.04) and slalom (ρ = -0.49, p = 0.013) performances, respectively. Static VA was a significant predictor of giant slalom [(F(3,11) = 24.71, p < 0.001), and R of 0.87], super G [(F(3,9) = 17.34, p = 0.002), and R of 0.85], and slalom [(F(3,11) = 11.8, p = 0.002), and R of 0.80] performance, but CS and VF were not. Interestingly, static VA and CS were highly correlated in both Para nordic (ρ = -0.60, p < 0.001) and Para alpine (ρ = -0.80, p < 0.001) skiers. Of the vision variables, only static VA and VF were associated with skiing performance and should be included as the in Para nordic and Para alpine classifications. The strong correlations between static VA and CS in these skiers with vision impairment may have masked relationships between CS and skiing performance.
Relating Dike Geometry and Injection Rate in Analogue Flux-Driven Experiments

Dikes feed most eruptions, so understanding their mechanism of propagation is fundamental for volcanic hazard assessment. The variation in geometry of a propagating dike as a function of the injection rate remains poorly studied. Here we use experiments injecting water into gelatin to investigate the variation of the thickness, width and length of a flux-driven dike connected to its source as a function of the injection time and intruded volume. Results show that the thickness of vertically propagating dikes is proportional to the injection rate and remains constant as long as the latter is constant. Neither buoyancy nor injected volume influence the thickness. The along-strike width of the dike is, however, proportional to the injected volume. These results, consistent with the inferred behavior of several dikes observed during emplacement, open new opportunities to better understand how dikes propagate and also to forecast how emplacing dikes may propagate once their geometric features are detected in real-time through monitoring data.