Miracle-dz/UniFAR-FTUs huggingface dataset:
Refinement of the dopaminergic system of anuran amphibians based on connectivity with habenula, basal ganglia, limbic system, pallium, and spinal cord

Whereas our understanding of the dopaminergic system in mammals allows for a distinction between ventral tegmental area (VTA) and substantia nigra pars compacta (SNc), no clear evidence for separate structures in anamniotes has been presented to date. To broaden the insight into the organization and regulation of neuromodulatory systems in anuran amphibians, tracing and immunohistochemical investigations were performed in the Oriental fire‐bellied toad, Bombina orientalis. Topographically organized catecholaminergic “nigrostriatal,” “mesolimbic,” “mesocortical,” and spinal cord projections arising from the posterior tubercle and mesencephalic tegmentum were identified. We compared these results with published data from lampreys, chondrichthyes, teleosts, amphibians, reptiles, birds, and mammals. Based on the pattern of organization, as well as the differential innervation by the habenular nuclei, domains gradually comparable to the mammalian paranigral VTA, ventral tier of the SNc, interfascicular nucleus of the VTA, and supramamillary/retromamillary area were identified. Additionally, we could demonstrate topographic separate populations of habenula neurons projecting via a direct excitatory or indirect GABAergic pathway onto the catecholaminergic VTA/SNc homologs and serotonergic raphe nuclei. The indirect GABAergic habenula pathway derives from neurons in the superficial mamillary area, which in terms of its connectivity and chemoarchitecture resembles the mammalian rostromedial tegmental nucleus. These results demonstrate a much more elaborate interconnection principle of the anuran dopaminergic system than previously assumed. Based on the data presented it seems that most features of the dopaminergic system of amniotes had already evolved when the amphibian line of evolution diverged from that leading up to mammals, reptiles, and birds.
Formaldehyde removal in the air by six plant systems with or without rhizosphere microorganisms

Abstract Uptake and in-plant transport of formaldehyde by six plants with or without soil microorganisms were investigated. The capabilities of fresh and boiled leaf extracts to dissipate added formaldehyde were also measured to evaluate formaldehyde metabolism in plant tissues. Results show that when the initial formaldehyde level in air was 0.56 ± 0.04 mg·m−3, the removal rate in the plant-only systems varied from 1.91 to 31.8 μg·h−1·g−1 FW (fresh weight). The removal rate of plants in the plant-only systems were ordered as Helianthus annuus Linn > Lycopersicon esculentum Miller > Oryza sativa > Sansevieria trifasciata Prain > Bryophyllum pinnatum > Mesembryanthemum cordifolium L. f. Most reduction of formaldehyde in the air was due to degradation by active components in the plant tissues, of which 4–64% of these were through to be enzymatic reactions. In the microbe-plant systems, formaldehyde removal rates increased by 0.24–9.53 fold compared to the plant-only systems, with approximately 19.6–90.5% of the formaldehyde reduction resulting from microbial degradation. Microorganisms added to the rhizosphere solution enhanced phytoremediation by increasing the downward transport of formaldehyde and its release by roots. Results suggest a new means to screen for efficient plant species that can be used for phytoremediation of indoor air.
Multispectral Sensor Calibration and Characterization for sUAS Remote Sensing

This paper focuses on the calibration of multispectral sensors typically used for remote sensing. These systems are often provided with “factory” radiometric calibration and vignette correction parameters. These parameters, which are assumed to be accurate when the sensor is new, may change as the camera is utilized in real-world conditions. As a result, regular calibration and characterization of any sensor should be conducted. An end-user laboratory method for computing both the vignette correction and radiometric calibration function is discussed in this paper. As an exemplar, this method for radiance computation is compared to the method provided by MicaSense for their RedEdge series of sensors. The proposed method and the method provided by MicaSense for radiance computation are applied to a variety of images captured in the laboratory using a traceable source. In addition, a complete error propagation is conducted to quantify the error produced when images are converted from digital counts to radiance. The proposed methodology was shown to produce lower errors in radiance imagery. The average percent error in radiance was −10.98%, −0.43%, 3.59%, 32.81% and −17.08% using the MicaSense provided method and their “factory” parameters, while the proposed method produced errors of 3.44%, 2.93%, 2.93%, 3.70% and 0.72% for the blue, green, red, near infrared and red edge bands, respectively. To further quantify the error in terms commonly used in remote sensing applications, the error in radiance was propagated to a reflectance error and additionally used to compute errors in two widely used parameters for assessing vegetation health, NDVI and NDRE. For the NDVI example, the ground reference was computed to be 0.899 ± 0.006, while the provided MicaSense method produced a value of 0.876 ± 0.005 and the proposed method produced a value of 0.897 ± 0.007. For NDRE, the ground reference was 0.455 ± 0.028, MicaSense method produced 0.239 ± 0.026 and the proposed method produced 0.435 ± 0.038.
Advances in the Interpretation of Frequency-Dependent Nuclear Magnetic Resonance Measurements from Porous Material

Fast-field-cycling nuclear magnetic resonance (FFC-NMR) is a powerful technique for non-destructively probing the properties of fluids contained within the pores of porous materials. FFC-NMR measures the spin–lattice relaxation rate R1(f) as a function of NMR frequency f over the kHz to MHz range. The shape and magnitude of the R1(f) dispersion curve is exquisitely sensitive to the relative motion of pairs of spins over time scales of picoseconds to microseconds. To extract information on the nano-scale dynamics of spins, it is necessary to identify a model that describes the relative motion of pairs of spins, to translate the model dynamics to a prediction of R1(f) and then to fit to the experimental dispersion. The principles underpinning one such model, the 3τ model, are described here. We present a new fitting package using the 3τ model, called 3TM, that allows users to achieve excellent fits to experimental relaxation rates over the full frequency range to yield five material properties and much additional derived information. 3TM is demonstrated on historic data for mortar and plaster paste samples.
Fluorescence Turn-On Detection of Ascorbic Acid Using a Self-Assembled Lanthanide Polymer Nanoparticle

Ascorbic acid (AA), or vitamin C, is an important reactive biological molecule in vivo, and an abnormal level of AA is associated with many diseases. Therefore, the rapid, sensitive, and selective detection of AA levels is of significance in cases of medical assay and diagnosis. Compared with other nanoparticles, lanthanide coordination polymer nanoparticles (Ln-CPs) have been demonstrated as the excellent biomolecule sensing platforms due to their unique optical properties and intrinsic porosities. In this work, the cerium coordination polymer nanoparticles ATP-Ce-Tris were synthesized in a simple and quick way. The synthesized ATP-Ce-Tris nanoparticle shows the characteristic peak of Ce3+ located at 365 nm, which is corresponding to the 4f→5d transition of Ce3+. In the presence of Fe3+, the fluorescence of ATP-Ce-Tris quenched, and the following added ascorbic acid (AA) makes it restoring effectively. Based on this, we constructed a fluorescence probe with excellent sensitivity for AA sensing in a wide linear relationship from 0.05 to 500 μM. The detection limit was as low as 18 nM (signal-to-noise ratio of three), which is one or two orders of magnitude lower than those of reported sensors. The proposed sensing systems also exhibits excellent sensitivity for AA detection in human serum sample, exploiting a valuable platform for AA analysis in clinic diagnostic and drug screening.
Extended-spectrum resistance to β-lactams/β-lactamase inhibitors (ESRI) evolved from low-level resistant Escherichia coli.

OBJECTIVES Escherichia coli is characterized by three resistance patterns to β-lactams/β-lactamase inhibitors (BLs/BLIs): (i) resistance to ampicillin/sulbactam and susceptibility to amoxicillin/clavulanic acid and piperacillin/tazobactam (RSS); (ii) resistance to ampicillin/sulbactam and amoxicillin/clavulanic acid, and susceptibility to piperacillin/tazobactam (RRS); and (iii) resistance to ampicillin/sulbactam, amoxicillin/clavulanic acid and piperacillin/tazobactam (RRR). These resistance patterns are acquired consecutively, indicating a potential risk of developing resistance to piperacillin/tazobactam, but the precise mechanism of this process is not completely understood. METHODS Clinical isolates incrementally pressured by piperacillin/tazobactam selection in vitro and in vivo were used. We determined the MIC of piperacillin/tazobactam in the presence and absence of piperacillin/tazobactam pressure. We deciphered the role of the blaTEM genes in the new concept of extended-spectrum resistance to BLs/BLIs (ESRI) using genomic analysis. The activity of β-lactamase was quantified in these isolates. RESULTS We show that piperacillin/tazobactam resistance is induced in E. coli carrying blaTEM genes. This resistance is due to the increase in copy numbers and transcription levels of the blaTEM gene, thus increasing β-lactamase activity and consequently increasing piperacillin/tazobactam MICs. Genome sequencing of two blaTEM-carrying representative isolates showed that piperacillin/tazobactam treatment produced two types of duplications of blaTEM (8 and 60 copies, respectively). In the clinical setting, piperacillin/tazobactam treatment of patients infected by E. coli carrying blaTEM is associated with a risk of therapeutic failure. CONCLUSIONS This study describes for the first time the ESRI in E. coli. This new concept is very important in the understanding of the mechanism involved in the acquisition of resistance to BLs/BLIs.
The contribution of host cell-directed vs. parasite-directed immunity to the disease and dynamics of malaria infections

Significance What makes an infected host sick—the pathogen or the host response to it? How should pathogens defend themselves? Answering these questions requires an understanding of how, and how much, the immune response changes populations of host and pathogen cells. We break down the immune response into components with distinct effects on cell birth and death, and quantify the impact of each on disease and pathogens. We find that hosts control infections not only by killing pathogens, but by starving parasites and shortening the lifespans of cells on which they depend. This work reveals that some immune responses—often seen as harmful to the host—may in fact be helpful and suggests simple rules that govern the immune response’s deployment. Hosts defend themselves against pathogens by mounting an immune response. Fully understanding the immune response as a driver of host disease and pathogen evolution requires a quantitative account of its impact on parasite population dynamics. Here, we use a data-driven modeling approach to quantify the birth and death processes underlying the dynamics of infections of the rodent malaria parasite, Plasmodium chabaudi, and the red blood cells (RBCs) it targets. We decompose the immune response into 3 components, each with a distinct effect on parasite and RBC vital rates, and quantify the relative contribution of each component to host disease and parasite density. Our analysis suggests that these components are deployed in a coordinated fashion to realize distinct resource-directed defense strategies that complement the killing of parasitized cells. Early in the infection, the host deploys a strategy reminiscent of siege and scorched-earth tactics, in which it both destroys RBCs and restricts their supply. Late in the infection, a “juvenilization” strategy, in which turnover of RBCs is accelerated, allows the host to recover from anemia while holding parasite proliferation at bay. By quantifying the impact of immunity on both parasite fitness and host disease, we reveal that phenomena often interpreted as immunopathology may in fact be beneficial to the host. Finally, we show that, across mice, the components of the host response are consistently related to each other, even when infections take qualitatively different trajectories. This suggests the existence of simple rules that govern the immune system’s deployment.
An online SSVEP-BCI system in an optical see-through augmented reality environment

Objective. This study aimed to design and evaluate a high-speed online steady-state visually evoked potential (SSVEP)-based brain–computer interface (BCI) in an optical see-through (OST) augmented reality (AR) environment. Approach. An eight-class BCI was designed in an OST-AR headset which is wearable and allows users to see the user interface of the BCI and the device to be controlled in the same view field via the OST head-mounted display. The accuracies, information transfer rates (ITRs), and SSVEP signal characteristics of the AR-BCI were evaluated and compared with a computer screen-based BCI implemented with a laptop in offline and online cue-guided tasks. Then, the performance of the AR-BCI was evaluated in an online robotic arm control task. Main results. The offline results obtained during the cue-guided task performed with the AR-BCI showed maximum averaged ITRs of 65.50 ± 9.86 bits min−1 according to the extended canonical correlation analysis-based target identification method. The online cue-guided task achieved averaged ITRs of 65.03 ± 11.40 bits min−1. The online robotic arm control task achieved averaged ITRs of 45.57 ± 7.40 bits min−1. Compared with the screen-based BCI, some limitations of the AR environment impaired BCI performance and the quality of SSVEP signals. Significance. The results showed the potential for providing a high-performance brain–control interaction method by combining AR and BCI. This study could provide methodological guidelines for developing more wearable BCIs in OST-AR environments and will also encourage more interesting applications involving BCIs and AR techniques.
Mental health in the Hispanic immigrant community: An overview

SUMMARY.This chapter addresses the mental health status of Hispanics in the United States. The prevalence and incidence of mental health disorders among different Hispanic ethnic subgroups is examined. Patterns of mental health services utilization and barriers to mental health care are also reviewed. Research specific to best mental health practices with Hispanics is stressed. [Article copies available for a fee from The Haworth Document
Comparison of anthropometric indices for the screening of nonalcoholic fatty liver disease in pre- and postmenopausal women.

OBJECTIVES Although it has been well-established that menopause causes a shift in body fat, there has been no study conducted yet to examine the best obesity parameters to predict the risk of nonalcoholic fatty liver disease (NAFLD) in this population. Thus, the aim of this study was to clarify the superiority among various obesity indices such as body mass index (BMI), waist circumference (WC), and waist-to-hip ratio (WHR) for predicting NAFLD in pre- and postmenopausal women. METHODS This cross-sectional analysis included 620 healthy women (318 premenopausal and 302 postmenopausal women) between 20 and 80 years of age recruited from the Health Promotion Center of Korea University Guro Hospital. NAFLD was diagnosed by abdominal ultrasonography. RESULTS In premenopausal women, there were no statistical differences in the area under the curve values among the three obesity indices, whereas, in postmenopausal women, the area under the curve value of WHR was significantly larger than those of either BMI (difference between area: 0.102, 95% confidence interval: 0.031, 0.173) or WC (difference between area: 0.064, 95% confidence interval: 0.018-0.109). Furthermore, in postmenopausal women, the combination of WHR with BMI or WC significantly increased predictive power of NAFLD when compared to using BMI or WC alone. The optimal cutoff values for BMI, WC, and WHR for detecting NAFLD were 23.9 kg/m, 69 cm, and 0.81 in premenopausal women and 22.9 kg/m, 74 cm, and 0.86 in postmenopausal women, respectively. CONCLUSIONS In premenopausal women, BMI, WC, and WHR hold similar potential in predicting the risk of NAFLD, whereas, in postmenopausal women, WHR is the most useful discriminative indicator for NAFLD. Women's optimal cutoff values for NAFLD were different according to menopausal status.
Is there a correlation between intraindividual variability in isokinetic knee extension/flexion and muscle fatigue?

The aim of this study was to test the hypothesis that intrain dividual variability in isokinetic knee extension/flexion relates positively to muscle fatigue, i.e., the less the mus cle fatigue during exercise, the greater is the variability of torque fluctuation. Twelve healthy males performed 100 continuous knee extensions and flexions with maximal intensity at 180 � /s. The main findings were: 1) the knee extension muscle exhibited mo re fatigue and less intraindividual variability than the kn ee flexion muscles; 2) intraindividual variability in knee extension (SD for torque fluctuation in 100 repetitions) relates close ly to fatigue. We conclude that intraindividual variability in isokineti c knee-extension torque relates inversely to muscle fatigue.
Expression of DinJ-YafQ System of Lactobacillus casei Group Strains in Response to Food Processing Stresses

Toxin-antitoxin (TA) systems are widely distributed in bacterial genomes and are involved in the adaptive response of microorganisms to stress conditions. Few studies have addressed TA systems in Lactobacillus and their role in the adaptation to food environments and processes. In this work, for six strains belonging to L. casei group isolated from dairy products, the expression of DinJ-YafQ TA system was investigated after exposure to various food-related stresses (nutrient starvation, low pH, high salt concentration, oxidative stress, and high temperature), as well as to the presence of antibiotics. In particular, culturability and DinJ-YafQ expression were evaluated for all strains and conditions by plate counts and RT qPCR. Among all the food-related stress conditions, only thermal stress was capable to significantly affect culturability. Furthermore, exposure to ampicillin significantly decreased the culturability of two L. rhamnosus strains. The regulation of DinJ-YafQ TA system resulted strain-specific; however, high temperature was the most significant stress condition able to modulate DinJ-YafQ expression. The increasing knowledge about TA systems activity and regulation might offer new perspectives to understand the mechanisms that L. casei group strains exploit to adapt to different niches or production processes.
Analysis of the uterine lumen in fertility-classified heifers: II. Proteins and metabolites†

Abstract Survival and growth of the bovine conceptus is dependent on endometrial secretions or histotroph. Previously, serial blastocyst transfer was used to classify heifers as high fertile (HF), subfertile (SF), or infertile (IF). Here, we investigated specific histotroph components (proteins and metabolites) in the uterine lumen of day 17 fertility-classified heifers. Interferon tau (IFNT) was more abundant in uterine lumenal fluid (ULF) of pregnant HF than SF animals as the conceptus was longer in HF heifers. However, no differences in endometrial expression of selected classical and nonclassical interferon-stimulated genes (ISGs) were observed, suggesting that IFNT signaling in the endometrium of pregnant HF and SF heifers was similar. Pregnancy significantly increased the abundance of several proteins in ULF. Based on functional annotation, the abundance of a number of proteins involved in energy metabolism, oxidative stress, amino acid metabolism, and cell proliferation and differentiation were greater in the ULF of pregnant HF than SF heifers. Metabolomics analysis found that pregnancy only changed the metabolome composition of ULF from HF heifers. The majority of the metabolites that increased in the ULF of pregnant HF as compared to SF heifers were associated with energy and amino acid metabolism. The observed differences in ULF proteome and metabolome are hypothesized to influence uterine receptivity with consequences on conceptus development and survival in fertility-classified heifers. Summary sentence Pregnancy induced changes in the uterine lumen are dysregulated in subfertile heifers.
Chemical Diversity and Classification of Secondary Metabolites in Nine Bryophyte Species

The central aim in ecometabolomics and chemical ecology is to pinpoint chemical features that explain molecular functioning. The greatest challenge is the identification of compounds due to the lack of constitutive reference spectra, the large number of completely unknown compounds, and bioinformatic methods to analyze the big data. In this study we present an interdisciplinary methodological framework that extends ultra-performance liquid chromatography coupled to electrospray ionization quadrupole time-of-flight mass spectrometry (UPLC/ESI-QTOF-MS) with data-dependent acquisition (DDA-MS) and the automated in silico classification of fragment peaks into compound classes. We synthesize findings from a prior study that explored the influence of seasonal variations on the chemodiversity of secondary metabolites in nine bryophyte species. Here we reuse and extend the representative dataset with DDA-MS data. Hierarchical clustering, heatmaps, dbRDA, and ANOVA with post-hoc Tukey HSD were used to determine relationships of the study factors species, seasons, and ecological characteristics. The tested bryophytes showed species-specific metabolic responses to seasonal variations (50% vs. 5% of explained variation). Marchantia polymorpha, Plagiomnium undulatum, and Polytrichum strictum were biochemically most diverse and unique. Flavonoids and sesquiterpenoids were upregulated in all bryophytes in the growing seasons. We identified ecological functioning of compound classes indicating light protection (flavonoids), biotic and pathogen interactions (sesquiterpenoids, flavonoids), low temperature and desiccation tolerance (glycosides, sesquiterpenoids, anthocyanins, lactones), and moss growth supporting anatomic structures (few methoxyphenols and cinnamic acids as part of proto-lignin constituents). The reusable bioinformatic framework of this study can differentiate species based on automated compound classification. Our study allows detailed insights into the ecological roles of biochemical constituents of bryophytes with regard to seasonal variations. We demonstrate that compound classification can be improved with adding constitutive reference spectra to existing spectral libraries. We also show that generalization on compound classes improves our understanding of molecular ecological functioning and can be used to generate new research hypotheses.