Miracle-dz/UniFAR-FTUs huggingface dataset:
Wet Spots as Hotspots: Moisture Responses of Nitric and Nitrous Oxide Emissions From Poorly Drained Agricultural Soils

A classic framework for soil nitrogen (N) cycling, the hole in the pipe (HIP) model, posits a trade‐off in emissions of nitric oxide (NO) and nitrous oxide (N2O) as a function of soil moisture. This has been incorporated into ecosystem models but not tested experimentally and remains an important uncertainty for understanding potential hotspots of reactive N emissions: poorly drained agricultural soils that experience episodically high moisture following intensive fertilization. We incubated soils at moisture ranging from 44% to 100% water‐filled pore space (WFPS). Counter to HIP, we did not observe a consistent trade‐off in NO and N2O emissions at intermediate moisture levels following fertilization, and prefertilization emissions were low. Emissions of N as N2O exceeded NO by 2–200‐fold at all moisture levels and peaked at 73–82% WFPS. Emissions of NO declined with moisture but remained significant even under saturated conditions. Increases in nitrite and reduced iron at high moisture indicated possible NO production from chemodenitrification. Potential nitrification rates were 100–1,000‐fold greater than potential denitrification. Emission factors for fertilizer N ranged from 0.05% to 0.58% (mean = 0.2%) for NO and from 0.4% to 16.9% (mean = 5.3%) for N2O. Our results caution the use of WFPS to predict NO:N2O emission ratios as often employed in ecosystem models. Subsurface N cycling may suppress emissions of NO relative to N2O, and N2O emissions can persist under saturated conditions. Elevated N2O emissions from in‐field wet spots comprising a small landscape extent could potentially address disparities between top‐down and bottom‐up N2O budgets.
Asian Citrus Psyllid Expression Profiles Suggest Candidatus Liberibacter Asiaticus-Mediated Alteration of Adult Nutrition and Metabolism, and of Nymphal Development and Immunity

The Asian citrus psyllid (ACP) Diaphorina citri Kuwayama (Hemiptera: Psyllidae) is the insect vector of the fastidious bacterium Candidatus Liberibacter asiaticus (CLas), the causal agent of citrus greening disease, or Huanglongbing (HLB). The widespread invasiveness of the psyllid vector and HLB in citrus trees worldwide has underscored the need for non-traditional approaches to manage the disease. One tenable solution is through the deployment of RNA interference technology to silence protein-protein interactions essential for ACP-mediated CLas invasion and transmission. To identify psyllid interactor-bacterial effector combinations associated with psyllid-CLas interactions, cDNA libraries were constructed from CLas-infected and CLas-free ACP adults and nymphs, and analyzed for differential expression. Library assemblies comprised 24,039,255 reads and yielded 45,976 consensus contigs. They were annotated (UniProt), classified using Gene Ontology, and subjected to in silico expression analyses using the Transcriptome Computational Workbench (TCW) (http://www.sohomoptera.org/ACPPoP/). Functional-biological pathway interpretations were carried out using the Kyoto Encyclopedia of Genes and Genomes databases. Differentially expressed contigs in adults and/or nymphs represented genes and/or metabolic/pathogenesis pathways involved in adhesion, biofilm formation, development-related, immunity, nutrition, stress, and virulence. Notably, contigs involved in gene silencing and transposon-related responses were documented in a psyllid for the first time. This is the first comparative transcriptomic analysis of ACP adults and nymphs infected and uninfected with CLas. The results provide key initial insights into host-parasite interactions involving CLas effectors that contribute to invasion-virulence, and to host nutritional exploitation and immune-related responses that appear to be essential for successful ACP-mediated circulative, propagative CLas transmission.
A Novel Mechanism for B Cell Repertoire Maturation Based on Response by B Cell Precursors to Pre–B Receptor Assembly

The expression of different sets of immunoglobulin specificities by fetal and adult B lymphocytes is a long-standing puzzle in immunology. Recently it has become clear that production of immunoglobulin μ heavy chain and subsequent assembly with a surrogate light chain to form the pre-B cell receptor complex is critical for development of B cells. Here we show that instead of promoting pre–B cell progression as in adult bone marrow, this complex inhibits pre–B cell growth in fetal liver. Curiously, we identify a fetal-associated VH11 μ heavy chain that allows continued pre-B proliferation in fetal liver. Interestingly, this heavy chain does not associate efficiently with a surrogate light chain, providing a previously unrecognized mechanism for skewing the expression of distinctive VH genes toward fetal through early neonatal life.
Hail Climatology of Australia based on Lightning and Reanalysis

The highly uneven distribution of population in Australia creates major shortcomings in the reporting of severe convective storms. With the majority of the population residing on the southeast coast around the major cities of Sydney, Melbourne, and Brisbane (see Fig. 1a), almost all of the storm reports are located there (Fig. 1b). Additional high density reporting areas are around Perth and Adelaide. In order to fill in the gaps and estimate the true severe storm frequency in low population regions, other data sources are sought. Gridded output from numerical models and remotely-sensed observations are two types that offer a method to achieve this. Reanalysis-based severe environments can indicate the potential for severe weather, and lightning indicates the realization of convection. The combination is expected to relate to the occurrence of severe weather. Only hail is investigated in this study. This paper is divided into the following topics: Section 2 describes the datasets and methodology. Section 3 presents the individual climatologies from the data. These individual climatologies are combined in section 4 to predict the true hail climatology. Section 5 compares the results with other studies, and section 6 provides a summary and conclusions.
Case finding for patients at risk of readmission to hospital: development of algorithm to identify high risk patients

Abstract Objective To develop a method of identifying patients at high risk of readmission to hospital in the next 12 months for practical use by primary care trusts and general practices in the NHS in England. Data sources Data from hospital episode statistics showing all admissions in NHS trusts in England over five years, 1999-2000 to 2003-4; data from the 2001 census for England. Population All residents in England admitted to hospital in the previous four years with a subset of “reference” conditions for which improved management may help to prevent future admissions. Design Multivariate statistical analysis of routinely collected data to develop an algorithm to predict patients at highest risk of readmission in the next 12 months. The algorithm was developed by using a 10% sample of hospital episode statistics data for all of England for the period indicated. The coefficients for 21 most powerful (and statistically significant) variables were then applied against a second 10% test sample to validate the findings of the algorithm from the first sample. Results The key factors predicting subsequent admission included age, sex, ethnicity, number of previous admissions, and clinical condition. The algorithm produces a risk score (from 0 to 100) for each patient admitted with a reference condition. At a risk score threshold of 50, the algorithm identified 54.3% of patients admitted with a reference condition who would have an admission in the next 12 months; 34.7% of patients were “flagged” incorrectly (they would not have a subsequent admission). At risk score threshold levels of 70 and 80, the rate of incorrectly “flagged” patients dropped to 22.6% and 15.7%, but the algorithm found a lower percentage of patients who would be readmitted. The algorithm is made freely available to primary care trusts via a website. Conclusions A method of predicting individual patients at highest risk of readmission to hospital in the next 12 months has been developed, which has a reasonable level of sensitivity and specificity. Using various assumptions a “business case” has been modelled to demonstrate to primary care trusts and practices the potential costs and impact of an intervention using the algorithm to reduce hospital admissions.
Is the prevalence of driving after drinking higher in entertainment areas?

AIMS This study aimed to estimate the prevalence of driving after drinking (DUI) and its associated factors in low and high alcohol outlet density areas (LAOD and HAOD) in Porto Alegre, Brazil. METHODS A probability 3-stage sampling survey was conducted, and 683 drivers who were leaving alcohol outlets (AOs) and had been drinking were interviewed, breathalyzed and saliva was collected for drug screening. Prevalences were assessed using domain estimation and DUI predictors were assessed using logistic models. results: It was estimated that 151,573 drivers drank at the AO, and intention to DUI was more prevalent in LAOD (59.3 versus 46.1% in HAOD, P = 0.003). On the other hand, HAOD had higher proportions of interviewees with a blood alcohol concentration (BAC) of >0.06% (46.6 versus 30.7%, P = 0.002) as well as a more frequent use of cocaine (9.3 versus 2.4%, P = 0.086). In the logistic models, drinking in a LAOD stratum was found to be associated with DUI (OR 1.72 (1.17-2.5)) and the two AO density areas presented different factors independently associated with DUI: THC use was significantly associated with the outcome in the HAOD stratum (OR 17.7 (5.1-61.8)), whereas an AUDIT score of >20 was positively associated with DUI in LAOD (OR 23.75 (1.5-364.0)). CONCLUSIONS High prevalences of driving under the influence of alcohol were evident in both the high and the low outlet density areas, although with different characteristics. Thorough enforcement of the legislation by random breath testing and sobriety checkpoints should be combined with AO licensing in order to reduce high levels of DUI and traffic accidents.
High-resolution MRI assessment of dactylitis in psoriatic arthritis shows flexor tendon pulley and sheath-related enthesitis

Objective Dactylitis is a hallmark of psoriatic arthritis (PsA) where flexor tenosynovitis is common. This study explored the microanatomical basis of dactylitis using high-resolution MRI (hrMRI) to visualise the small entheses around the digits. Methods Twelve patients with psoriatic dactylitis (4 fingers, 8 toes), and 10 healthy volunteers (6 fingers, 4 toes) had hrMRI of the digits using a ‘microscopy’ coil and contrast enhancement. All structures were evaluated including the tendons and ligaments, related enthesis organs, pulleys, volar/plantar plates and tendon sheaths. Results In dactylitis, collateral ligament enthesitis was seen in nine digits (75%), extensor tendon enthesitis in six digits (50%), functional enthesitis (5 digits, 42%), abnormal enhancement at the volar plates (2/5 joints, 40%) and the plantar plate (1/5 joints, 20%). Nine cases (75%) demonstrated flexor tenosynovitis, with flexor tendon pulley/flexor sheath microenthesopathy observed in 50% of all cases. Less abnormalities which were milder was observed in the normal controls, none of whom had any signal changes in the tendon pulleys or fibrous sheaths. Conclusions This study provides proof of concept for a link between dactylitis and ‘digital polyenthesitis’ including disease of the miniature enthesis pulleys of the flexor tendons, further affirming the concept of enthesitis in PsA.
Early effects of boron deficiency on indoleacetic Acid oxidase levels of squash root tips.

The indoleacetic acid (IAA) oxidase activity of root tips of boron-sufficient, -deficient, recovering, and IAA-treated boron-sufficient squash plants (Cucurbita pepo L.) was determined. Apical and subapical root sections displayed an increase in IAA oxidase activity between 6 and 9 hours after boron was withheld, and after 24 hours the activity of the apical sections showed a 20-fold increase over +B controls. Root elongation of -B plants was inhibited before an increase in oxidase activity could be detected. Roots of plants subjected to 12 hours of -B treatment and then transferred to +B treatment for recovery regained normal elongation rates and oxidase activity within 18 to 20 hours. IAA treatment of +B plants increased IAA oxidase activity of apical and subapical root sections and also inhibited root elongation and caused symptoms similar to -B treatments.These results have demonstrated the earliest enzymic change for intact boron-deficient plants. The results are in agreement with the theory that boron deficiency symptoms may be the result of supraoptimal endogenous levels of IAA. These high levels of IAA may inhibit cell division and lead to an induction of the IAA oxidase enzyme.
Sphingosine-1-Phosphate Aggravates Antigen-Induced Airway Inflammation in Mice

Recent investigations suggest an involvement of sphingosine-1-phosphate (S1P) in the pathogenesis of allergic bronchial asthma. However, the role of S1P in the development of asthma is still controversial. Our aim was to investigate the effects of intranasal application of S1P on antigen-induced airway inflammation in a mouse model of allergic bronchial asthma. Methodology: Male BALB/c mice were actively sensitized with ovalbumin antigen, and were repeatedly challenged with aerosolized antigen. Animals also received an intranasal administration of S1P (10-5 M, 20 µL) or its vehicle (1% methanol in sterile PBS, 20 µL) 30 min prior to each antigen challenge. Histological examinations of the lungs and determination of cell number in the bronchoalveolar lavage fluids (BALFs) were studied. Results: The airway inflammation induced by antigen exposure was significantly augmented by the intranasal administration of S1P: the cell number in BALFs of the S1P-treated, antigen-challenged mice (S1P-Challenged, 48.9±4.8 x 104/mL BALF) was significantly increased as compared with those of the vehicle-treated, antigen-challenged ones (Vehicle-Challenged, 26.3±5.7 x 104/mL BALF, P<0.01). Conclusion: In mice, the intranasal administration of S1P might aggravate the antigen-induced airway inflammation.
Vac8p, a Vacuolar Protein with Armadillo Repeats, Functions in both Vacuole Inheritance and Protein Targeting from the Cytoplasm to Vacuole

During each cell cycle, the yeast vacuole actively partitions between mother and daughter cells. This process requires actin, profilin, an unconventional myosin (Myo2p), and Vac8p. A mutant yeast strain, vac8, is defective in vacuole inheritance, specifically, in early vacuole migration. Vac8p is a 64-kD protein found on the vacuole membrane, a site consistent with its role in vacuole inheritance. Both myristoylation and palmitoylation are required for complete Vac8p localization. Interestingly, whereas myristoylation of Vac8p is not required for vacuole inheritance, palmitoylation is essential. Thus, palmitoylation appears to play a more direct role in vacuole inheritance. Most of the VAC8 sequence encodes 11 armadillo (Arm) repeats. Arm repeats are thought to mediate protein–protein interactions, and many Arm proteins have multiple functions. This is also true for Vac8p. In addition to its role in early vacuole inheritance, Vac8p is required to target aminopeptidase I from the cytoplasm to the vacuole. Mutant analysis demonstrates that Vac8p functions separately in these two processes. Vac8p cosediments with actin filaments. Vac8p is related to β-catenin and plakoglobin, which connect a specific region of the plasma membrane to the actin cytoskeleton. In analogy, Vac8p may link the vacuole to actin during vacuole partitioning.
Highly Nonrandom Features of Synaptic Connectivity in Local Cortical Circuits

How different is local cortical circuitry from a random network? To answer this question, we probed synaptic connections with several hundred simultaneous quadruple whole-cell recordings from layer 5 pyramidal neurons in the rat visual cortex. Analysis of this dataset revealed several nonrandom features in synaptic connectivity. We confirmed previous reports that bidirectional connections are more common than expected in a random network. We found that several highly clustered three-neuron connectivity patterns are overrepresented, suggesting that connections tend to cluster together. We also analyzed synaptic connection strength as defined by the peak excitatory postsynaptic potential amplitude. We found that the distribution of synaptic connection strength differs significantly from the Poisson distribution and can be fitted by a lognormal distribution. Such a distribution has a heavier tail and implies that synaptic weight is concentrated among few synaptic connections. In addition, the strengths of synaptic connections sharing pre- or postsynaptic neurons are correlated, implying that strong connections are even more clustered than the weak ones. Therefore, the local cortical network structure can be viewed as a skeleton of stronger connections in a sea of weaker ones. Such a skeleton is likely to play an important role in network dynamics and should be investigated further.
Effects of Generative and Discriminative Learning on Use of Category Variability

Rational models of category learning can take two different approaches to representing the relationship between objects and categories. The generative approach solves the categorization problem by building a probabilistic model of each category and using Bayes’ rule to infer category labels. In contrast, the discriminative approach directly learns a mapping between inputs and category labels. With this distinction in mind, we revisit a previously studied categorization experiment that showed people are biased towards categorizing objects into a category with higher variability. Modelling results predict that generative learners should be more greatly affected by category variability than discriminative learners. We show that humans can be prompted to adopt either a generative or discriminative approach to learning the same input, resulting in the predicted effect on use of category variability.
Bounds On The Labelling Numbers Of Chordal Graphs

Motivated by the conjecture on the L(2, 1)-labelling number λ(G) of a graph G by Griggs and Yeh [2] and the question: “Is the upper bound (∆+3)/4 for λ(G) for chordal graphs with maximum degree ∆ is sharp? ”, posed by Sakai [3], we study the bounds for λ(G) for chordal graphs in this paper. Let G be a chordal graph on n vertices with maximum degree ∆ and maximum clique number ω. We improve the upper bound (∆+3)/4 on λ(G) and the upper bound (∆ + 2d− 1)/4 on λd(G) with d ≥ 2, answering question of Sakai and improving results of Chang et al. Finally, we study the labelling numbers of r-power paths P r n on n vertices. We obtain λd(P r n) for small integers d ≥ 2 and r ≥ 2, and give a better bound of λd(P r n) for large integers d and r.
The growth of the oocyte and follicle in the ovaries of monotremes and marsupials

Oocyte growth in relation to follicular growth in marsupials conforms to the uniform biphasic pattern characteristic of eutherian mammals. However, the oocyte of the marsupial is larger and completes growth in a correspondingly larger follicle. At the completion of oocyte growth the follicle, like that of eutherians, shows no appreciable accumulation of follicular fluid. The ratio of oocyte/follicular diameter in marsupials at this stage is 0.59, a value close to that of 0.55 for eutherian mammals. The oocyte nucleus of the marsupial is also significantly larger than that of the eutherian, but the oocyte nucleolus is approximately the same diameter.
Rock Physics, Geomechanics and Rock Properties in Shales — Where are the Links?

Understanding shale behaviour is of increasing importance to the petroleum industry and also impacts on engineering issues such as landslides and hazardous waste disposal. Few data are currently available regarding geomechanical, petrophysical and dynamic elastic properties of shales that have been properly preserved and tested under controlled pore pressure conditions. The research detailed here involves triaxial testing of shales to determine failure envelopes, with ultrasonic measurements taken during the application of differential stress through to failure. Empirical relationships are then derived between the geomechanical properties and more easily (or regularly) measured physical and petrophysical properties such as porosity, clay content, cation exchange capacity and dielectric properties. The dynamic elastic properties of shales and their anisotropy are shown to be significantly impacted by maximum principal stress orientation with respect to microfabric and microfracture orientation.
Short-Term Overfeeding Increases Circulating Adiponectin Independent of Obesity Status

Background Adiponectin is an adipose tissue derived hormone which strengthens insulin sensitivity. However, there is little data available regarding the influence of a positive energy challenge (PEC) on circulating adiponectin and the role of obesity status on this response. Objective The purpose of this study was to investigate how circulating adiponectin will respond to a short-term PEC and whether or not this response will differ among normal-weight(NW), overweight(OW) and obese(OB). Design We examined adiponectin among 64 young men (19-29 yr) before and after a 7-day overfeeding (70% above normal energy requirements). The relationship between adiponectin and obesity related phenotypes including; weight, percent body fat (%BF), percent trunk fat (%TF), percent android fat (%AF), body mass index (BMI), total cholesterol, HDLc, LDLc, glucose, insulin, homeostatic model assessment insulin resistance (HOMA-IR) and β-cell function (HOMA-β) were analyzed before and after overfeeding. Results Analysis of variance (ANOVA) and partial correlations were used to compute the effect of overfeeding on adiponectin and its association with adiposity measurements, respectively. Circulating Adiponectin levels significantly increased after the 7-day overfeeding in all three adiposity groups. Moreover, adiponectin at baseline was not significantly different among NW, OW and OB subjects defined by either %BF or BMI. Baseline adiponectin was negatively correlated with weight and BMI for the entire cohort and %TF, glucose, insulin and HOMA-IR in OB. However, after controlling for insulin resistance the correlation of adiponectin with weight, BMI and %TF were nullified. Conclusion Our study provides evidence that the protective response of adiponectin is preserved during a PEC regardless of adiposity. Baseline adiponectin level is not directly associated with obesity status and weight gain in response to short-term overfeeding. However, the significant increase of adiponectin in response to overfeeding indicates the physiological potential for adiponectin to attenuate insulin resistance during the development of obesity.