Miracle-dz/UniFAR-FTUs huggingface dataset:
Microbial Flow Within an Air-Phyllosphere-Soil Continuum

The phyllosphere is populated by numerous microorganisms. Microbes from the wider environment, i.e., air and soil, are considered key contributors to phyllosphere microbial communities, but their contribution is unclear. This study seeks to address this knowledge gap by controlling the movement of microbes along the air-phyllosphere-soil continuum. Customized equipment with dual chambers was constructed that permitted airflow to enter the first chamber while the second chamber recruited filtered microbe-free air from the initial chamber. Allium schoenoprasum (chive) and Sonchus oleraceus (sow thistle) were cultivated in both chambers, and the microbial communities from air, phyllosphere, and soil samples were characterized. Shares of microbial OTUs in the equipment suggested a potential interconnection between the air, phyllosphere, and soil system. Fast expectation-maximization microbial source tracking (FEAST) suggested that soil was the major source of airborne microbial communities. In contrast, the contribution of airborne and soil microbes to phyllosphere microbial communities of either A. schoenoprasum or S. oleraceus was limited. Notably, the soilborne microbes were the only environmental sources to phyllosphere in the second chamber and could affect the composition of phyllosphere microbiota indirectly by air flow. The current study demonstrated the possible sources of phyllosphere microbes by controlling external airborne microbes in a designed microcosm system and provided a potential strategy for recruitment for phyllosphere recruitment.
Prkaa1 Metabolically Regulates Monocyte/Macrophage Recruitment and Viability in Diet-Induced Murine Metabolic Disorders

Myeloid cells, including monocytes/macrophages, primarily rely on glucose and lipid metabolism to provide the energy and metabolites needed for their functions and survival. AMP-activated protein kinase (AMPK, its gene is PRKA for human, Prka for rodent) is a key metabolic sensor that regulates many metabolic pathways. We studied recruitment and viability of Prkaa1-deficient myeloid cells in mice and the phenotype of these mice in the context of cardio-metabolic diseases. We found that the deficiency of Prkaa1 in myeloid cells downregulated genes for glucose and lipid metabolism, compromised glucose and lipid metabolism of macrophages, and suppressed their recruitment to adipose, liver and arterial vessel walls. The viability of macrophages in the above tissues/organs was also decreased. These cellular alterations resulted in decreases in body weight, insulin resistance, and lipid accumulation in liver of mice fed with a high fat diet, and reduced the size of atherosclerotic lesions of mice fed with a Western diet. Our results indicate that AMPKα1/PRKAA1-regulated metabolism supports monocyte recruitment and macrophage viability, contributing to the development of diet-induced metabolic disorders including diabetes and atherosclerosis.
Fiber-optic remote sensor for in situ surface-enhanced Raman scattering analysis

An in situ SERS fiber-optic system for remote sensing was developed for exciting and collecting surface-enhanced Raman scattering (SERS) signals generated from a sensing probe having silver-coated microparticles deposited on a glass plate support. The geometry of the excitation and collection fibers is a head-on arrangement, with the fibers on opposite sides of the SERS substrate and with the angle between the fibers equal to 180{degree}. Remote measurements are performed with the SERS probe and the collection fibers immersed in the analyte solution. The analytical data relevant to the performance of the SERS fiber-optic system, such as spectral characteristics, limits of detection, signal response, and temporal behavior, are described.
Resource, Collaborator, or Individual Cow? Applying Q Methodology to Investigate Austrian Farmers' Viewpoints on Motivational Aspects of Improving Animal Welfare

One keystone to successful welfare improvement endeavors is a respected cooperation between farmer and advisor (e.g., veterinarian), which requires a thorough understanding of what motivates farmer behavior. In this respect, Q methodology offers a promising approach in investigating individual motivational patterns and to discriminate between and describe typologies of farmers. In our study we explored, based on a sample of 34 Austrian dairy farmers, how 39 potentially motivating statements regarding the improvement of dairy cow health and welfare were assessed. We were able to identify and describe four different viewpoints, explaining 47% of total study variance. All four viewpoints have in common that pride in a healthy herd is motivating to work toward improved animal health and welfare to a certain extent, but meeting legal requirements is rather not. Viewpoint 1 acknowledges welfare for economic performance, ease of work and short working hours but does not make allowance for outside interference. Participants loading on Viewpoint 2 also show a focus on economic aspects but, keep close track of the animal welfare debate recognizing its potential to improve the public image of dairy farming. Even though they cautiously criticize an exploitative application of dairy farming, they do not want to be understood as role models. With regards to animal welfare, farmers sharing Viewpoint 3 perceive themselves as superior to and show little reluctance of comparison with mainstream farming. For them, the animal as sentient being itself owns some intrinsic value and it is necessary to strike a balance between economic and other, ethical considerations. Viewpoint 4 perceives cows as equal collaborators who deserve to be treated with respect and appreciation and is willing to accept certain economic losses in order to maintain high standards regarding animal health and welfare. Using Q methodology, we have been able to draw high resolution images of different farmer typologies, enabling advisors to tailor intervention strategies specifically addressing leverage points with a high chance of farmer compliance.
Assessing Mental Health of Women Living in Karachi During the Covid-19 Pandemic

Introduction: Women are more susceptible to mental health disorders and have been reported to experience higher levels of depression and anxiety during previous large-scale disease outbreaks. Stressful events like the COVID-19 pandemic can add extra burdens to women's already multifaceted lives. Keeping the gender implications of COVID-19 in mind can assist health care workers to offer more effective management. In our study, we aimed to assess the impact of COVID-19 on the mental health of women in Karachi, Pakistan and investigate the possible risk factors. Methods: An online questionnaire was distributed to women on social media platforms in the month of June 2020. The questionnaire had two self-assessment scales, Patient Health Questionnaire (PHQ-9) scale which measures the symptoms of depression and General Anxiety Disorder (GAD-7) scale which measures anxiety. Results: Three hundred and ninety three individuals completed the questionnaire with the mean age calculated to be 27.6 ± 11.7 years. Age, education, marital status, number of children, financial issues, employment status, smoking, comorbidities and mental illnesses were significantly associated with participants' mean anxiety and depression scores. The depression scores were generally higher compared to anxiety scores in each category. As the age increased, their scores decreased, with women aged 18–30 having a significantly higher mean depression and anxiety scores compared to women who were above 50. Severe anxiety was identified in 21.9% women and severe depression was noted in 17.8% women. A frightening number of 148 (37.7%) was found of women who had self-destructive thoughts at one time or another. Out of these women, surprisingly 97 (65.5%) individuals were not previously diagnosed with any mental illnesses. Discussion: This study supports the existing literature regarding the disturbed psychological state of women close to the peak of the covid-19 pandemic. We noted increased percentage of depressive women as compared to studies conducted before the covid-19 era. This raises concern especially with our thought provoking finding of self-harm or suicidal thoughts among women. Most of our female population is also seen to be anxious. This study highlights the importance for help and support groups of mental health to effectively reach women during this period of social isolation.
A Versatile Plant Rhabdovirus-Based Vector for Gene Silencing, miRNA Expression and Depletion, and Antibody Production

Plant virus vectors are ideal tools for delivery of genetic cargo into host cells for functional genomics studies and protein overexpression. Although a vast number of plant virus vectors have been developed for different purposes, the utility of a particular virus vector is generally limited. Here, we report a multipurpose plant rhabdovirus-based vector system suitable for a wide range of applications in Nicotiana benthamiana. We engineered sonchus yellow net rhabdovirus (SYNV)-based gene silencing vectors through expressing a sense, antisense, or double-stranded RNAs of target genes. Robust target gene silencing was also achieved with an SYNV vector expressing a designed artificial microRNA. In addition, ectopic expression of a short tandem target mimic RNA using the SYNV vector led to a significant depletion of the target miR165/166 and caused abnormal leaf development. More importantly, SYNV was able to harbor two expression cassettes that permitted simultaneous RNA silencing and overexpression of large reporter gene. This dual capacity vector also enabled systemic expression of a whole-molecule monoclonal antibody consisting of light and heavy chains. These results highlight the utility of the SYNV vector system in gene function studies and agricultural biotechnology and provide a technical template for developing similar vectors of other economically important plant rhabdoviruses.
Goals and Self-Efficacy Beliefs During the Initial COVID-19 Lockdown: A Mixed Methods Analysis

This study aimed to capture how the coronavirus disease 2019 (COVID-19) crisis disrupted and affected individuals’ goal pursuits and self-efficacy beliefs early during the lockdown phase of COVID-19. Participants impacted by lockdown regulations accessed an online questionnaire during a 10-day window from the end of March to early April 2020 and reported a significant personal goal toward which they had been working, and then completed quantitative and qualitative survey items tapping self-efficacy beliefs for goal achievement, subjective caring about the goal during disrupted world events, and current pursuit or abandonment of the goal. The findings from both quantitative and qualitative measures demonstrated a significant drop in self-efficacy beliefs from before to during the pandemic with a large effect based on whether people thought they could still achieve their goal under current conditions. Over two-thirds of the sample was unsure or did not believe they could still carry out their goal, and over a quarter either abandoned or were uncertain they could pursue the goal. Despite this, people continued to care about their goals. Reasons for abandonment and strategies for coping with goals within the lockdown and beyond are discussed.
Is Brain Dynamics Preserved in the EEG After Automated Artifact Removal? A Validation of the Fingerprint Method and the Automatic Removal of Cardiac Interference Approach Based on Microstate Analysis

The assessment of a method for removing artifacts from electroencephalography (EEG) datasets often disregard verifying that global brain dynamics is preserved. In this study, we verified that the recently introduced optimized fingerprint method and the automatic removal of cardiac interference (ARCI) approach not only remove physiological artifacts from EEG recordings but also preserve global brain dynamics, as assessed with a new approach based on microstate analysis. We recorded EEG activity with a high-resolution EEG system during two resting-state conditions (eyes open, 25 volunteers, and eyes closed, 26 volunteers) known to exhibit different brain dynamics. After signal decomposition by independent component analysis (ICA), the independent components (ICs) related to eyeblinks, eye movements, myogenic interference, and cardiac electromechanical activity were identified with the optimized fingerprint method and ARCI approach and statistically compared with the outcome of the expert classification of the ICs by visual inspection. Brain dynamics in two different groups of denoised EEG signals, reconstructed after having removed the artifactual ICs identified by either visual inspection or the automated methods, was assessed by calculating microstate topographies, microstate metrics (duration, occurrence, and coverage), and directional predominance (based on transition probabilities). No statistically significant differences between the expert and the automated classification of the artifactual ICs were found (p > 0.05). Cronbach’s α values assessed the high test–retest reliability of microstate parameters for EEG datasets denoised by the automated procedure. The total EEG signal variance explained by the sets of global microstate templates was about 80% for all denoised EEG datasets, with no significant differences between groups. For the differently denoised EEG datasets in the two recording conditions, we found that the global microstate templates and the sequences of global microstates were very similar (p < 0.01). Descriptive statistics and Cronbach’s α of microstate metrics highlighted no significant differences and excellent consistency between groups (p > 0.5). These results confirm the ability of the optimized fingerprint method and the ARCI approach to effectively remove physiological artifacts from EEG recordings while preserving global brain dynamics. They also suggest that microstate analysis could represent a novel approach for assessing the ability of an EEG denoising method to remove artifacts without altering brain dynamics.
Fictosexuality, Fictoromance, and Fictophilia: A Qualitative Study of Love and Desire for Fictional Characters

Fictosexuality, fictoromance, and fictophilia are terms that have recently become popular in online environments as indicators of strong and lasting feelings of love, infatuation, or desire for one or more fictional characters. This article explores the phenomenon by qualitative thematic analysis of 71 relevant online discussions. Five central themes emerge from the data: (1) fictophilic paradox, (2) fictophilic stigma, (3) fictophilic behaviors, (4) fictophilic asexuality, and (5) fictophilic supernormal stimuli. The findings are further discussed and ultimately compared to the long-term debates on human sexuality in relation to fictional characters in Japanese media psychology. Contexts for future conversation and research are suggested.
Manganese Phthalocyanine Derivatives Synthesized by On-Surface Cyclotetramerization

We report a two-step on-surface synthesis of Mn phthalocyanine molecules from four tetracyanobenzene (TCNB) monomers through coordinative bonding with manganese adatoms. In the first step, the coevaporation of TCNB and Mn atoms leads to a metal–organic network stabilized by a combination of coordination and hydrogen (H) bonds. In the second step, annealing the coordination networks above room temperature results in individual Mn phthalocyanine molecules. The results shown here demonstrate the viability of an on-surface chemical synthesis strategy involving the reduction of the organic reagents by metal ions to produce metal–organic molecules.
Substrate Pre-loading Influences Initial Colonization of GAC Biofilter Biofilms

Microbial community composition and stability affect pollutant removal for biological/granular activated carbon (BAC/GAC) processes. Here, we pre-loaded the organic carbon substrates sucrose, lactose, and Lysogeny Broth (LB) medium onto new GAC prior to use and then tested whether this substrate pre-loading promoted development of biofilms with high coverage that remained stable for prolonged operational periods. Temporal dynamics of the biomass and microbial community on the GAC were monitored via flow cytometry (FCM) and sequencing, respectively, in both batch and continuous-flow experiments. In comparison with the non-loaded GAC (control), the initial biofilm biomass on substrate-loaded GAC was 3–114 times higher, but the initial richness was considerably lower (only accounting for 13–28% of the control). The initial community compositions were significantly different between batch and continuous-flow column experiments, even when loaded with the same substrates. In the continuous-flow column experiments, both biomass and microbial community composition became remarkably similar to the control filters after 64 days of operation. From these findings, we conclude that substrate-loaded GAC could enhance initial colonization, affecting both biomass and microbial community composition. However, the biomass and composition did not remain stable during long-term operation due to continuous dispersal and competition from influent bacteria.
Bath‐induced vibronic coherence transfer effects on femtosecond time‐resolved resonant light scattering spectra from molecules

Effects of vibronic coherence transfer induced by the heat bath on ultrafast time‐resolved resonant light scattering (RLS) spectra are theoretically investigated within the master equation approach. The vibronic coherence initially created by a coherent optical excitation transfers to other vibronic coherent states due to inelastic interactions between the vibronic system concerned (the relevant system) and the heat bath. The vibronic coherence transfer results in the quantum beats in the time‐resolved RLS spectra. The bath‐induced vibronic transition operator is derived in the double space representation of the density matrix theory. Model calculations of the femtosecond (fs) time‐resolved RLS spectra are performed to demonstrate the effects of the bath‐induced vibronic coherence transfer.
Heat-Induced Oxidation of the Nuclei and Cytosol

The concept that heat stress (HS) causes a large accumulation of reactive oxygen species (ROS) is widely accepted. However, the intracellular compartmentation of ROS accumulation has been poorly characterized. We therefore used redox-sensitive green fluorescent protein (roGFP2) to provide compartment-specific information on heat-induced redox changes of the nuclei and cytosol of Arabidopsis leaf epidermal and stomatal guard cells. We show that HS causes a large increase in the degree of oxidation of both compartments, causing large shifts in the glutathione redox potentials of the cells. Heat-induced increases in the levels of the marker transcripts, heat shock protein (HSP)101, and ascorbate peroxidase (APX)2 were maximal after 15 min of the onset of the heat treatment. RNAseq analysis of the transcript profiles of the control and heat-treated seedlings revealed large changes in transcripts encoding HSPs, mitochondrial proteins, transcription factors, and other nuclear localized components. We conclude that HS causes extensive oxidation of the nucleus as well as the cytosol. We propose that the heat-induced changes in the nuclear redox state are central to both genetic and epigenetic control of plant responses to HS.
Mycobacterium tuberculosis and M. bovis BCG Moreau Fumarate Reductase Operons Produce Different Polypeptides That May Be Related to Non-canonical Functions

Tuberculosis is a world widespread disease, caused by Mycobacterium tuberculosis (M.tb). Although considered an obligate aerobe, this organism can resist life-limiting conditions such as microaerophily mainly due to its set of enzymes responsible for energy production and coenzyme restoration under these conditions. One of these enzymes is fumarate reductase, an heterotetrameric complex composed of a catalytic (FrdA), an iron-sulfur cluster (FrdB) and two transmembrane (FrdC and FrdD) subunits involved in anaerobic respiration and important for the maintenance of membrane potential. In this work, aiming to further characterize this enzyme function in mycobacteria, we analyzed the expression of FrdB-containing proteins in M.tb and Mycobacterium bovis Bacillus Calmette–Guérin (BCG) Moreau, the Brazilian vaccine strain against tuberculosis. We identified three isoforms in both mycobacteria, two of them corresponding to the predicted encoded polypeptides of M.tb (27 kDa) and BCG Moreau (40 kDa) frd sequences, as due to an insertion on the latter’s operon a fused FrdBC protein is expected. The third 52 kDa band can be explained by a transcriptional slippage event, typically occurring when mutation arises in a repetitive region within a coding sequence, thought to reduce its impact allowing the production of both native and variant forms. Comparative modeling of the M.tb and BCG Moreau predicted protein complexes allowed the detection of subtle overall differences, showing a high degree of structure and maybe functional resemblance among them. Axenic growth and macrophage infection assays show that the frd locus is important for proper bacterial development in both scenarios, and that both M.tb’s and BCG Moreau’s alleles can partially revert the hampered phenotype of the knockout strain. Altogether, our results show that the frdABCD operon of Mycobacteria may have evolved to possess other yet non-described functions, such as those necessary during aerobic logarithmic growth and early stage steps of infection.
Going Viral: How Fear, Socio-Cognitive Polarization and Problem-Solving Influence Fake News Detection and Proliferation During COVID-19 Pandemic

In times of uncertainty, people often seek out information to help alleviate fear, possibly leaving them vulnerable to false information. During the COVID-19 pandemic, we attended to a viral spread of incorrect and misleading information that compromised collective actions and public health measures to contain the spread of the disease. We investigated the influence of fear of COVID-19 on social and cognitive factors including believing in fake news, bullshit receptivity, overclaiming, and problem-solving—within two of the populations that have been severely hit by COVID-19: Italy and the United States of America. To gain a better understanding of the role of misinformation during the early height of the COVID-19 pandemic, we also investigated whether problem-solving ability and socio-cognitive polarization were associated with believing in fake news. Results showed that fear of COVID-19 is related to seeking out information about the virus and avoiding infection in the Italian and American samples, as well as a willingness to share real news (COVID and non-COVID-related) headlines in the American sample. However, fear positively correlated with bullshit receptivity, suggesting that the pandemic might have contributed to creating a situation where people were pushed toward pseudo-profound existential beliefs. Furthermore, problem-solving ability was associated with correctly discerning real or fake news, whereas socio-cognitive polarization was the strongest predictor of believing in fake news in both samples. From these results, we concluded that a construct reflecting cognitive rigidity, neglecting alternative information, and black-and-white thinking negatively predicts the ability to discern fake from real news. Such a construct extends also to reasoning processes based on thinking outside the box and considering alternative information such as problem-solving.