Miracle-dz/UniFAR-FTUs huggingface dataset:
Complete Genome Sequence of Temperature-Dependent Pigment-Producing Serratia marcescens ATCC 274

Serratia marcescens ATCC 274 produces the red pigment prodigiosin and the biosurfactant serrawettin W1 at 30°C but not at 37°C. A complete, high-quality genome sequence of S. marcescens ATCC 274 was obtained and found to comprise a single 5,148,533-bp circular genome with 4,799 genes. ABSTRACT Serratia marcescens ATCC 274 produces the red pigment prodigiosin and the biosurfactant serrawettin W1 at 30°C but not at 37°C. A complete, high-quality genome sequence of S. marcescens ATCC 274 was obtained and found to comprise a single 5,148,533-bp circular genome with 4,799 genes.
Leisure-Time Physical Activity, Sedentary Behaviour and Diet Quality are Associated with Metabolic Syndrome Severity: The PREDIMED-Plus Study

Healthy lifestyle factors, such as physical activity (PA) and Mediterranean diet (MD), decrease the likelihood of developing metabolic syndrome (MetS). The aim of this study was to report main lifestyle components and related factors according to the MetS severity. Cross-sectional analysis was done of baseline lifestyle factors from 5739 participants with overweight/obesity and MetS features (aged 55–75 years) included in the PREDIMED-PLUS primary cardiovascular prevention randomized trial. Participants were categorized in tertiles according to a validated MetS severity score (MetSSS). Anthropometrics, visceral adiposity index, dietary nutrient intake, biochemical marker levels, as well as a Dietary Inflammatory Index and depression symptoms (Beck Depression Inventory-II) were measured. Diet quality was assessed using a 17-item energy-restricted MD questionnaire. Duration and intensity of PA was self-reported using the Minnesota-REGICOR Short Physical Activity Questionnaire. Sedentary behaviours were measured using the Spanish version of the Nurses’ Health Study questionnaire. The 30 s chair stand test was also assessed. Participants with highest MetSSS showed higher values of cardiovascular risk factors (except for total cholesterol and LDL cholesterol), depression risk, sedentary and TV viewing time, and lower moderate and vigorous leisure-time physical activity (LTPA). Highest MetSSS participants tended to a pro-inflammatory dietary pattern and tended to lower MD adherence. In addition, they showed lower carbohydrate and nut intake and higher intake of protein, saturated and trans fatty acids, cholesterol, iodine, sodium, red and processed meat products, other oils different from olive oil and spirit alcoholic drinks. The highest MetS severity score was associated with lower moderate and vigorous LTPA and higher sedentary time and depression risk, as they tended to a pro-inflammatory dietary pattern and lower MD adherence.
Comparison between Y90 Radioembolization Plus Sorafenib and Y90 Radioembolization alone in the Treatment of Hepatocellular Carcinoma: A Propensity Score Analysis

Background: Adjuvant sorafenib may enhance the efficacy of transarterial radioembolization with yttrium-90 in hepatocellular carcinoma patients. The aim of this study is to assess the efficacy and safety of radioembolization plus sorafenib in comparison to radioembolization alone. Methods: Out of 175 hepatocellular carcinoma (HCC) patients treated with radioembolization between 2011 and 2018, after propensity score matching, two groups were compared: a group of 45 patients that underwent radioembolization while being on sorafenib (Group 1) and a second group of 90 patients that underwent radioembolization alone (Group 2). Results: Baseline characteristics of the two groups were well balanced concerning liver function and tumor burden. No significant differences in survival outcomes were identified (median overall survival 10 vs. 10 months; p = 0.711), median progression-free survival 6 vs. 7 months (p = 0.992) in Group 1 and Group 2). The objective response rate in Group 1 vs. Group 2 was 45.5% vs. 42.8% (p = 1) according to mRECIST. No differences in toxicity nor in liver decompensation rates were registered. Conclusions: The association of sorafenib does not prolong survival nor delay progression in patients treated with radioembolization. Liver toxicity does not differ among the two therapeutic schemes.
Cohort study evaluating management of burns in the community in clinical practice in the UK: costs and outcomes

Objective To evaluate health outcomes, resource use and corresponding costs attributable to managing burns in clinical practice, from initial presentation, among a cohort of adults in the UK. Design Retrospective cohort analysis of the records of a randomly selected cohort of 260 patients from The Health Improvement Network (THIN) database who had 294 evaluable burns. Setting Primary and secondary care sectors in the UK. Primary and secondary outcome measures Patients’ characteristics, wound-related health outcomes, healthcare resource use and total National Health Service (NHS) cost of patient management. Results Diagnosis was incomplete in 63% of patients’ records as the location, depth and size of the burns were missing. Overall, 70% of all the burns healed within 24 months and the time to healing was a mean of 7.8 months per burn. Sixty-six per cent of burns were initially managed in the community and the other 34% were managed at accident and emergency departments. Patients’ wounds were subsequently managed predominantly by practice nurses and hospital outpatient clinics. Forty-five per cent of burns had no documented dressings in the patients’ records. The mean NHS cost of wound care in clinical practice over 24 months from initial presentation was an estimated £16 924 per burn, ranging from £12 002 to £40 577 for a healed and unhealed wound, respectively. Conclusions Due to incomplete documentation in the patients’ records, it is difficult to say whether the time to healing was excessive or what other confounding factors may have contributed to the delayed healing. This study indicates the need for education of general practice clinicians on the management and care of burn wounds. Furthermore, it is beholden on the burns community to determine how the poor healing rates can be improved. Strategies are required to improve documentation in patients’ records, integration of care between different providers, wound healing rates and reducing infection.
Role of Gut Microbiota in Neuroendocrine Regulation of Carbohydrate and Lipid Metabolism via the Microbiota-Gut-Brain-Liver Axis

Gut microbiota play an important role in maintaining intestinal health and are involved in the metabolism of carbohydrates, lipids, and amino acids. Recent studies have shown that the central nervous system (CNS) and enteric nervous system (ENS) can interact with gut microbiota to regulate nutrient metabolism. The vagal nerve system communicates between the CNS and ENS to control gastrointestinal tract functions and feeding behavior. Vagal afferent neurons also express receptors for gut peptides that are secreted from enteroendocrine cells (EECs), such as cholecystokinin (CCK), ghrelin, leptin, peptide tyrosine tyrosine (PYY), glucagon-like peptide-1 (GLP-1), and 5-hydroxytryptamine (5-HT; serotonin). Gut microbiota can regulate levels of these gut peptides to influence the vagal afferent pathway and thus regulate intestinal metabolism via the microbiota-gut-brain axis. In addition, bile acids, short-chain fatty acids (SCFAs), trimethylamine-N-oxide (TMAO), and Immunoglobulin A (IgA) can also exert metabolic control through the microbiota-gut-liver axis. This review is mainly focused on the role of gut microbiota in neuroendocrine regulation of nutrient metabolism via the microbiota-gut-brain-liver axis.
Exploring the Relation Between Teacher Factors and Student Growth in Early Writing

Data from a small randomized control trial of teachers’ use of Data-Based Instruction (DBI) for early writing were analyzed to determine the influence of teacher knowledge, skills, and treatment fidelity on student Curriculum-Based Measurement (CBM) slope. Participants included 11 elementary grade teachers who delivered intensive intervention in early writing and their students (n = 31), all identified as either at risk for or with disabilities that affect their writing. Teachers received professional development and ongoing coaching to support the implementation of DBI for improving their students’ early writing skills. Results from a multiple regression analysis suggest that teacher knowledge and skills in DBI was strongly related to student CBM slope in early writing (p < .01) and a small but significant relation between fidelity of writing instruction and student CBM slope (p < .01). Implications for instructional coaching and improving student writing progress are discussed.
OmniSCV: An Omnidirectional Synthetic Image Generator for Computer Vision

Omnidirectional and 360° images are becoming widespread in industry and in consumer society, causing omnidirectional computer vision to gain attention. Their wide field of view allows the gathering of a great amount of information about the environment from only an image. However, the distortion of these images requires the development of specific algorithms for their treatment and interpretation. Moreover, a high number of images is essential for the correct training of computer vision algorithms based on learning. In this paper, we present a tool for generating datasets of omnidirectional images with semantic and depth information. These images are synthesized from a set of captures that are acquired in a realistic virtual environment for Unreal Engine 4 through an interface plugin. We gather a variety of well-known projection models such as equirectangular and cylindrical panoramas, different fish-eye lenses, catadioptric systems, and empiric models. Furthermore, we include in our tool photorealistic non-central-projection systems as non-central panoramas and non-central catadioptric systems. As far as we know, this is the first reported tool for generating photorealistic non-central images in the literature. Moreover, since the omnidirectional images are made virtually, we provide pixel-wise information about semantics and depth as well as perfect knowledge of the calibration parameters of the cameras. This allows the creation of ground-truth information with pixel precision for training learning algorithms and testing 3D vision approaches. To validate the proposed tool, different computer vision algorithms are tested as line extractions from dioptric and catadioptric central images, 3D Layout recovery and SLAM using equirectangular panoramas, and 3D reconstruction from non-central panoramas.
Bottom-up and top-down effects on phytoplankton communities in two freshwater lakes

The relative importance of bottom-up versus top-down effects in aquatic ecosystems remains a longstanding and ongoing controversy. To investigate these effects on phytoplankton communities in freshwater lakes, phytoplankton and zooplankton were sampled, and physical-chemical variables were measured during spring and summer in two important freshwater lakes in northern China: Nansi Lake and Dongping Lake. The redundancy analysis results showed that phytoplankton density and biomass were regulated by physical-chemical variables (bottom-up effects) and predation (top-down effects) together, and the former was more prominent in both lakes. However, the correlation analysis indicated that the top-down effects of zooplankton on phytoplankton were not significant in spring and summer in both lakes, while the bottom-up regulation of physical-chemical variables on phytoplankton had different patterns in the two lakes. In Nansi Lake, the bottom-up effects of physical-chemical variables on phytoplankton were weaker in summer than that in spring due to the abundant nutrients in summer. In Dongping Lake, the bottom-up effects of physical-chemical on phytoplankton were significant both in spring and summer, and the dominant bottom-up control factor shifted from total nitrogen in spring to total phosphorus in summer, with an increased ratio of nitrogen to phosphorus due to changes in limiting factors. In the two studied lakes, with fish culture, the bottom-up effects of phytoplankton on zooplankton were more important than the top-down effects of zooplankton on phytoplankton. These results demonstrate the interactions between phytoplankton and zooplankton and highlight the importance of phytoplankton regulation in freshwater lakes, which has implications for the effective management of freshwater lake ecosystems.
Puzzled by Idealizations and Understanding Their Functions

Idealization is ubiquitous in human cognition, and so is the inclination to be puzzled by it: what to make of ideal gas, infinitely large populations, homo economicus, perfectly just society, known to violate matters of fact? This is apparent in social science theorizing (from J. H. von Thünen, J. S. Mill, and Max Weber to Milton Friedman and Thomas Schelling), recent philosophy of science analyzing scientific modeling, and the debate over ideal and non-ideal theory in political philosophy (since John Rawls). I will offer a set of concepts and principles to improve transparency about the precise contents of idealizations (in terms of negligibility, applicability, tractability, and early-step status) and their distinct functions (such as contributing to minimal modeling, benchmark modeling, and how-possibly modeling).
Identification and expression analysis of WRKY gene family under drought stress in peanut (Arachis hypogaea L.)

WRKY transcription factors play crucial roles in regulation mechanism leading to the adaption of plants to the complex environment. In this study, AhWRKY family was comprehensively analyzed using bioinformatic approaches in combination with transcriptome sequencing data of the drought-tolerant peanut variety ‘L422’. A total of 158 AhWRKY genes were identified and named according to their distribution on the chromosomes. Based on the structural features and phylogenetic analysis of AhWRKY proteins, the AhWRKY family members were classified into three (3) groups, of which group II included five (5) subgroups. Results of structure and conserved motifs analysis for the AhWRKY genes confirmed the accuracy of the clustering analysis. In addition, 12 tandem and 136 segmental duplication genes were identified. The results indicated that segmental duplication events were the main driving force in the evolution of AhWRKY family. Collinearity analysis found that 32 gene pairs existed between Arachis hypogaea and two diploid wild ancestors (Arachis duranensis and Arachis ipaensis), which provided valuable clues for phylogenetic characteristics of AhWRKY family. Furthermore, 19 stress-related cis-acting elements were found in the promoter regions. During the study of gene expression level of AhWRKY family members in response to drought stress, 73 differentially expressed AhWRKY genes were obtained to have been influenced by drought stress. These results provide fundamental insights for further study of WRKY genes in peanut drought resistance.
Glycerol kinase stimulates uncoupling protein 1 expression by regulating fatty acid metabolism in beige adipocytes

Browning of adipose tissue is induced by specific stimuli such as cold exposure and consists of up-regulation of thermogenesis in white adipose tissue. Recently, it has emerged as an attractive target for managing obesity in humans. Here, we performed a comprehensive analysis to identify genes associated with browning in murine adipose tissue. We focused on glycerol kinase (GYK) because its mRNA expression pattern is highly correlated with that of uncoupling protein 1 (UCP1), which regulates the thermogenic capacity of adipocytes. Cold exposure-induced Ucp1 up-regulation in inguinal white adipose tissue (iWAT) was partially abolished by Gyk knockdown (KD) in vivo. Consistently, the Gyk KD inhibited Ucp1 expression induced by treatment with the β-adrenergic receptors (βAR) agonist isoproterenol (Iso) in vitro and resulted in impaired uncoupled respiration. Gyk KD also suppressed Iso- and adenylate cyclase activator-induced transcriptional activation and phosphorylation of the cAMP response element-binding protein (CREB). However, we did not observe these effects with a cAMP analog. Therefore Gyk KD related to Iso-induced cAMP products. In Iso-treated Gyk KD adipocytes, stearoyl-CoA desaturase 1 (SCD1) was up-regulated, and monounsaturated fatty acids such as palmitoleic acid (POA) accumulated. Moreover, a SCD1 inhibitor treatment recovered the Gyk KD-induced Ucp1 down-regulation and POA treatment down-regulated Iso-activated Ucp1. Our findings suggest that Gyk stimulates Ucp1 expression via a mechanism that partially depends on the βAR-cAMP-CREB pathway and Gyk-mediated regulation of fatty acid metabolism.
Review of world Parapanteles Ashmead (Hymenoptera: Braconidae: Microgastrinae), with description of fourteen new Neotropical species and the first description of the final instar larvae

Currently only two Neotropical species are known for Parapanteles Ashmead (1900): Parapanteles aletiae (Riley), described from the U.S., Cuba and Puerto Rico, and P. paradoxus (Muesebeck), described from Costa Rica. In the present paper we describe 14 new species from the New World (Parapanteles complexus n.sp., P. continua n.sp., P. em n.sp., P. lincolnii n.sp., P. mariae n.sp., P. nephos n.sp., P. noae n.sp., P. polus n.sp., P. rarus n.sp., P.scotti n.sp., P. sicpolus n.sp., P. tessares n.sp., P. thrix n.sp., P. tlinea n.sp.) and provide an illustrated key for the world species. In addition, we present a synopsis of the ecology of species in the genus using new rearing records and previously published host records. Eighteen species in 11 lepidopteran families are known to be hosts for Parapanteles species, and these hosts feed on plants from 21 families totaling at least 43 species.
The Correlation of Neuronal Signals with Behavior at Different Levels of Visual Cortex and Their Relative Reliability for Behavioral Decisions

Behavior can be guided by neuronal activity in visual, auditory, or somatosensory cerebral cortex, depending on task requirements. In contrast to this flexible access of cortical signals, several observations suggest that behaviors depend more on neurons in later areas of visual cortex than those in earlier areas, although neurons in earlier areas would provide more reliable signals for many tasks. We recorded from neurons in different levels of visual cortex of 2 male rhesus monkeys while the animals did a visual discrimination task and examined trial-to-trial correlations between neuronal and behavioral responses. These correlations became stronger in primary visual cortex as neuronal signals in that area became more reliable relative to the other areas. The results suggest that the mechanisms that read signals from cortex might access any cortical area depending on the relative value of those signals for the task at hand. SIGNIFICANCE STATEMENT Information is encoded by the action potentials of neurons in various cortical areas in a hierarchical manner such that increasingly complex stimulus features are encoded in successive stages. The brain must extract information from the response of appropriate neurons to drive optimal behavior. A widely held view of this decoding process is that the brain relies on the output of later cortical areas to make decisions, although neurons in earlier areas can provide more reliable signals. We examined correlations between perceptual decisions and the responses of neurons in different levels of monkey visual cortex. The results suggest that the brain may access signals in any cortical area depending on the relative value of those signals for the task at hand.
Solubility Improvement of Progesterone from Solid Dispersions Prepared by Solvent Evaporation and Co-milling

The aim of this contribution was to evaluate the impact of processing methods and polymeric carriers on the physicochemical properties of solid dispersions of the poorly soluble drug progesterone (PG). Five polymers: hydroxypropyl methylcellulose (HPMC), hydroxypropyl methylcellulose acetate succinate (HPMCAS), microcrystalline cellulose (MCC), polyvinylpyrrolidone (PVP) and silica (SiO2), and two processing methods: solvent evaporation (SE) and mechano-chemical activation by co-milling (BM) were applied. H-bonding was demonstrated by FTIR spectra as clear shifting of drug peaks at 1707 cm−1 (C20 carbonyl) and 1668 cm−1 (C3 carbonyl). Additionally, spectroscopic and thermal analysis revealed the presence of unstable PG II polymorphic form and a second heating DSC cycle, the presence of another polymorph possibly assigned to form III, but their influence on drug solubility was not apparent. Except for PG–MCC, solid dispersions improved drug solubility compared to physical mixtures. For SE dispersions, an inverse relationship was found between drug water solubility and drug–polymer Hansen solubility parameter difference (Δδt), whereas for BM dispersions, the solubility was influenced by both the intermolecular interactions and the polymer Tg. Solubility improvement with SE was demonstrated for all except PG–MCC dispersions, whereas improvement with BM was demonstrated by the PG–HPMC, PG–PVP and PG–HPMCAS dispersions, the last showing impressive increase from 34.21 to 82.13 μg/mL. The extensive H-bonding between PG and HPMCAS was proved by FTIR analysis of the dispersion in the liquid state. In conclusion, although SE improved drug solubility, BM gave more than twice greater improvement. This indicates that directly operating intermolecular forces are more efficient than the solvent mediated.
Exploring a broader context of the home environment and its relationship with asthma control in American Indian children.

In this cross-sectional study of 60 American Indian mother-child dyads from Southeastern North Carolina, we examined whether childhood asthma control was related to household-level factors, such as environmental tobacco smoke and family management behaviors. We also examined the relationships among family management behaviors and maternal depressive symptoms. We used logistic regression to assess the relationships among childhood asthma control, the presence of environmental tobacco smoke, and family management behaviors, specifically condition management ability (CMA) and condition management effort (CME). We used linear regression to evaluate the relationships between both CMA and CME and maternal depressive symptoms. Better asthma control in children was associated with the absence of environmental tobacco smoke in the home and the maternal perception of asthma as a manageable condition. Mothers perceived an increase in effort to manage their child's asthma as their depressive symptoms increased. These findings emphasize the importance of environmental triggers, perceptions of condition management, and maternal mental health in controlling asthma in American Indian children. Interventions to reduce environmental triggers, treat maternal depressive symptoms, and support mothers in their ability to manage childhood asthma may yield better asthma control and help to reduce existing racial disparities in this population.