Miracle-dz/UniFAR-FTUs huggingface dataset:
Association between Urban Greenness and Depressive Symptoms: Evaluation of Greenness Using Various Indicators

An increasing number of studies have suggested benefits of greenness exposure on mental health. We examined the association between urban greenness and depressive symptoms in adults in the general population living in the seven major cities in Korea (N = 65,128). Using data from the Korean Community Health Survey 2009, depressive symptoms were measured on the Center for Epidemiological Studies Depression Scale (CES-D). Greenness was assessed using Normalized Difference Vegetation Index (NDVI) and land-use data (forest area and forest volume). Logistic regression models were fitted to adjust for potential confounders. Individuals in regions with the highest NDVI (quartile 4) had the lowest odds for depressive symptoms compared to quartile 1, after adjusting for potential confounders (OR = 0.813; 95% CI: 0.747, 0.884). For all greenness indicators except for forest area per district area (%), the highest rate of depressive symptoms was found for the individuals in the lowest quartile of greenness (quartile 1) and the lowest rate of depressive symptoms for those in the highest quartile of greenness (quartile 4). We found an inverse association between urban greenness and depressive symptoms, which was consistent across a variety of greenness indicators. Our study suggests health benefits of greenness and could provide a scientific basis for policy making and urban planning.
Changes in the cortical silent period during force control

Abstract Purpose: The contribution of gamma-aminobutyric acidergic inhibitory neural circuits in the primary motor cortex, as estimated by the cortical silent period, during weak and strong force output has not been defined. The aim of this study was to investigate whether cortical silent period is modulated with change from weak to strong force control. Materials and methods: Eleven healthy right-handed adults participated in this study. With the aid of visual feedback, participants were asked to control the force of abduction of the right index finger to 10%, 20%, 40%, 60%, 80%, and 100% of the maximum voluntary contraction. Single pulse transcranial magnetic stimulation was delivered to the left primary motor cortex region during force control tasks. The averaged actual force output level, background electromyography amplitude, and cortical silent period duration were compared between conditions, and correlation analysis was conducted. Results: There were significant main effects of target force on background electromyography, and cortical silent period duration; with increased force, the actual force output level and background electromyography gradually increased, while cortical silent period duration gradually decreased. There were significant negative correlations between cortical silent period and force and cortical silent period and background electromyography. Conclusions: These findings indicate that the excitability of gamma-aminobutyric acidergic inhibitory neural circuits in primary motor cortex decreases in response to increased force output, mediated via increased corticospinal and motoneuron excitability. These results may facilitate understanding of the role of the gamma-aminobutyric acidergic circuit in primary motor cortex in force control, as well as of the mechanism underlying motor dysfunction in stroke-induced palsy, dystonia, and cerebellar ataxia.
SHANK1 polymorphisms and SNP–SNP interactions among SHANK family: A possible cue for recognition to autism spectrum disorder in infant age

Autism spectrum disorder (ASD) is a serious lifelong neurodevelopmental disorder. ASD is diagnosed for children at the age of two. ASD diagnosis, as early as possible, lays the foundation for treatment and much better prognosis. Notably, gene‐based test is an inherent method to recognize the potential infants with ASD before the age of two. To investigate whether SHANK family contributes to ASD prediction, on the basis of our previous studies of SHANK2 and SHANK3, we further investigated associations between SHANK1 polymorphisms and ASD risk as well as SNP–SNP interactions among SHANK family. We enrolled 470 subjects (229 cases and 241 healthy controls) who were northeast Chinese Han. Four tag SNPs (rs73042561, rs3745521, rs4801846, and rs12461427) of SHANK1 were selected and genotyped. We used the SNPStats online analysis program to assess the associations between the four SNPs and ASD risk. The SNP–SNP interactions among SHANK family were analyzed using multifactor dimensionality reduction method. We found that the four SHANK1 SNPs were not associated with ASD risk in northeast Chinese Han population. There existed a strong synergistic interaction between rs11236697 [SHANK2] and rs74336682 [SHANK2], and moderate synergistic interactions (rs74336682 [SHANK2]–rs73042561 [SHANK1], rs11236697 [SHANK2]–rs77716438 [SHANK2], and rs11236697 [SHANK2]–rs75357229 [SHANK2]). These SHANK1 variants may not affect the susceptibility to ASD in Chinese Han population. SNP–SNP interactions in SHANK family may confer ASD risk. Autism Res 2019, 12: 375–383 © 2019 International Society for Autism Research, Wiley Periodicals, Inc.
Biodegradation of the Allelopathic Chemical Pterostilbene by a Sphingobium sp. Strain from the Peanut Rhizosphere

Pterostilbene, an analog of resveratrol, is a stilbene allelochemical produced by plants to inhibit microbial infection. As a potent antioxidant, pterostilbene acts more effectively than resveratrol as an antifungal agent. Bacterial degradation of this plant natural product would affect the allelopathic efficacy and fate of pterostilbene and thus its ecological role. This study explores the isolation and abundance of bacteria that degrade resveratrol and pterostilbene in peanut tissues and rhizosphere, the catabolic pathway for pterostilbene, and the molecular basis for the initial cleavage of pterostilbene. If plant allelopathy is an important process in agriculture and management of invasive plants, the ecological role of bacteria that degrade the allelopathic chemicals must be equally important. ABSTRACT Many plants produce allelopathic chemicals, such as stilbenes, to inhibit pathogenic fungi. The degradation of allelopathic compounds by bacteria associated with the plants would limit their effectiveness, but little is known about the extent of biodegradation or the bacteria involved. Screening of tissues and rhizosphere of peanut (Arachis hypogaea) plants revealed substantial enrichment of bacteria able to grow on resveratrol and pterostilbene, the most common stilbenes produced by the plants. Investigation of the catabolic pathway in Sphingobium sp. strain JS1018, isolated from the rhizosphere, indicated that the initial cleavage of pterostilbene was catalyzed by a carotenoid cleavage oxygenase (CCO), which led to the transient accumulation of 4-hydroxybenzaldehyde and 3,5-dimethoxybenzaldehyde. 4-Hydroxybenzaldehyde was subsequently used for the growth of the isolate, while 3,5-dimethoxybenzaldehyde was further converted to a dead-end metabolite with a molecular weight of 414 (C24H31O6). The gene that encodes the initial oxygenase was identified in the genome of strain JS1018, and its function was confirmed by heterologous expression in Escherichia coli. This study reveals the biodegradation pathway of pterostilbene by plant-associated bacteria. The prevalence of such bacteria in the rhizosphere and plant tissues suggests a potential role of bacterial interference in plant allelopathy. IMPORTANCE Pterostilbene, an analog of resveratrol, is a stilbene allelochemical produced by plants to inhibit microbial infection. As a potent antioxidant, pterostilbene acts more effectively than resveratrol as an antifungal agent. Bacterial degradation of this plant natural product would affect the allelopathic efficacy and fate of pterostilbene and thus its ecological role. This study explores the isolation and abundance of bacteria that degrade resveratrol and pterostilbene in peanut tissues and rhizosphere, the catabolic pathway for pterostilbene, and the molecular basis for the initial cleavage of pterostilbene. If plant allelopathy is an important process in agriculture and management of invasive plants, the ecological role of bacteria that degrade the allelopathic chemicals must be equally important.
Optimizing Prediction Model for a Noninvasive Brain–Computer Interface Platform Using Channel Selection, Classification, and Regression

A brain–computer interface (BCI) platform can be utilized by a user to control an external device without making any overt movements. An EEG-based computer cursor control task is commonly used as a testbed for BCI applications. While traditional computer cursor control schemes are based on sensorimotor rhythm, a new scheme has recently been developed using imagined body kinematics (IBK) to achieve natural cursor movement in a shorter time of training. This article attempts to explore optimal decoding algorithms for an IBK paradigm using EEG signals with application to neural cursor control. The study is based on an offline analysis of 32 healthy subjects’ training data. Various machine learning techniques were implemented to predict the kinematics of the computer cursor using EEG signals during the training tasks. Our results showed that a linear regression least squares model yielded the highest goodness-of-fit scores in the cursor kinematics model (70% in horizontal prediction and 40% in vertical prediction using a Theil-Sen regressor). Additionally, the contribution of each EEG channel on the predictability of cursor kinematics was examined for horizontal and vertical directions, separately. A directional classifier was also proposed to classify horizontal versus vertical cursor kinematics using EEG signals. By incorporating features extracted from specific frequency bands, we achieved 80% classification accuracy in differentiating horizontal and vertical cursor movements. The findings of the current study could facilitate a pathway to designing an optimized online neural cursor control.
Increased Dairy Product Intake Modifies Plasma Glucose Concentrations and Glycated Hemoglobin: A Systematic Review and Meta-Analysis of Randomized Controlled Trials.

Dairy product intake is inversely associated with the risk of type 2 diabetes (T2D) in numerous cohort studies; yet, the beneficial effects of increased dairy product intake on T2D risk factors such as fasting plasma glucose, fasting insulin, insulin resistance with the homeostasis model assessment, and glycated hemoglobin (HbA1c) remain inconclusive in clinical trials. The objective of this study was to systematically review clinical trials observing the effects of elevated compared with minimal intake of dairy products on T2D risk factors in subjects without diabetes. Five databases [Medline, EMBASE, Central, CINAHL, AMED (Allied and Complementary Medicine)] were searched to identify randomized controlled trials that used elevated quantities of dairy products from ruminant sources in comparison with a lower intake in control groups. The review outcomes were fasting blood glucose, fasting insulin, homeostasis model assessment of insulin resistance (HOMA-IR), and HbA1c. Risk of bias and quality of evidence according to Grading of Recommendations Assessment, Development, and Evaluation were addressed. From the 10,627 citations screened, 44 studies (3016 participants) were included, 38 of which were used in the meta-analyses. Fasting glucose was positively associated with elevated dairy intake [34 studies, n = 2678; mean difference (MD): 0.07 mmol/L; 95% CI: 0.01, 0.12 mmol/L; P = 0.01, I2 = 23%]. Fasting insulin (29 studies, n = 1902; MD: -2.97 pmol/L; 95% CI: -7.05, 1.10 pmol/L; P = 0.15, I2 = 21%) and HOMA-IR (13 studies, n = 840; standardized MD: -0.07; 95% CI: -0.26, 0.12; P = 0.49, I2 = 38%) were not associated with elevated dairy consumption. HbA1c was negatively associated with elevated dairy product intake in 4 studies (n = 512; MD: -0.09%; 95% CI: -0.09%, -0.03%; P = 0.005, I2 = 0%). Most studies had high risk of bias and the quality of evidence was very low or low. In conclusion, evidence suggests that elevated dairy product intake is associated with increased fasting plasma glucose concentrations together with reduced HbA1c in nondiabetic subjects. Hence, the clinical significance of these results remains uncertain. Additional well-designed, long-term studies are required.
Comparative omasum anatomy in ruminants: Relationships with natural diet, digestive physiology, and general considerations on allometric investigations

The omasum is the third forestomach compartment of pecoran ruminants. It is assumed that the re‐absorption of fluid present in the forestomach digesta (that facilitates particle sorting, digestion, and harvest of microbes) is its main function, so that less diluted digesta is submitted to enzymatic digestion in the lower digestive tract. Here, we evaluate measures of omasum size (representing 84 ruminant species in the largest data set) against body mass and proxies of the natural diet (%grass) or forestomach physiology (fluid throughput), using phylogenetically controlled models. The origin of specimens (free‐ranging or captive) did not have an effect in the data set. Models with the best support invariably either included %grass or a physiology proxy in addition to body mass. These effects were not necessarily additive (affecting the intercept of the allometric regression), but often indicated a change in the allometric body mass‐exponent with diet or physiology. Only models that allowed an influence on the allometric exponent yielded basic exponents compatible with predictions derived from geometry. Species that include more grass in their natural diet, or that have a “cattle‐type” physiology marked by a high forestomach fluid throughput, generally have larger omasa. However, the existence of outliers, as well as the overall data pattern, suggest that this is not an obligatory morphophysiological condition. Circumstantial evidence is presented leading to the hypothesis that the comparatively small and less complex omasa of “moose‐type” species do not necessarily represent an “original” state, but may be derived from more complex states by ontogenetic reduction and fusion of omasal laminae.
Predictors of post-traumatic stress symptoms following occupational accidents: A longitudinal study

ABSTRACT Objective: Occupational accidents are highly stressful events that frequently occur and impact both the physical and mental health of workers. The aim of this study was to longitudinally assess a predictive model of posttraumatic stress symptoms (PTSS) in workers who have suffered a recent accident. Method: Two hundred and forty-four workers (77.8% men), aged 18 to 73 years, who had experienced an accident during the last month that resulted in hospitalization and/or ten or more days of sick leave, were surveyed. A second survey was carried out six months later. Regression analyses included psychological predictors (i.e. subjective severity of event, brooding and positive and negative religious coping), along with objective predictors (i.e. hospitalization, sick leave days and unemployment). Results: It was found that the main predictors of PTSS were brooding, negative religious coping, days of sick leave and unemployment, with a large effect size (R2 = .45). Conclusions: The discussion is based on the usefulness of including selected psychological and objective predictors for detecting people more susceptible to developing psychopathology due to the stress following an accident. Identifying at-risk people for developing PTSS after an accident may help to introduce selective preventive strategies or early interventions in this population.
Abrogation of cathepsin C by Helicobacter pylori impairs neutrophil activation to promote gastric infection

Cathepsin C (CtsC) functions as a central coordinator for activation of many serine proteases in immune cells. However, CtsC expression in gastric epithelial cells and its role in Helicobacter pylori infection remain unclear. Real‐time PCR, Western blot, and immunohistochemistry analyses identified that CtsC was decreased in gastric mucosa of H. pylori–infected patients and mice. Isolated gastric epithelial cells and cell lines were stimulated with H. pylori and/or TGF‐β1 showed that down‐regulation of CtsC in gastric epithelial cells largely depended on H. pylori cagA via Src/ERK and Janus kinase (JAK)/signal transducer and activator of transcription 3 (STAT3) pathways, and the effect could be synergistically augmented by TGF‐β1 in an autocrine manner. In human gastric mucosa, CtsC expression was negatively correlated with bacteria colonization; accordingly, provision of exogenous active CtsC overwhelmed H. pylori persistence in gastric mucosa of mice. In the presence of active CtsC, isolated human neutrophils activated via NF‐κB pathway with augmented bactericidal capacity in vitro. We also found that neutrophils activated and cleared bacteria in active CtsC‐injected mice and that there was no bactericidal capacity in mice that were simultaneously neutrophil‐depleted by Ly6G antibody. Our findings identified a mechanism that H. pylori abrogate CtsC to impair neutrophil activation and to ensure persistence in gastric mucosa. Efforts to enable and boost this neutrophil activation pathway by active CtsC may therefore become valuable strategies in treating H. pylori infection. —Liu, Y. G. , Teng, Y. S. , Cheng, P., Kong, H. , Lv, Y. P., Mao, F. Y. , Wu, X. L. , Hao, C. J., Chen, W. , Yang, S. M. , Zhang, J. Y. , Peng, L. S. , Wang, T. T. , Han, B. , Ma, Q. , Zou, Q. M. , Zhuang, Y. Abrogation of cathepsin C by Helicobacter pylori impairs neutrophil activation to promote gastric infection. FASEB J. 33, 5018–5033 (2019). www.fasebj. org
Dijital Hikâye Anlatımının Görsel Bellek ve Yazma Becerisi Üzerine Etkisi

Bu arastirmanin amaci dijital hikâye anlatiminin(DHA) ogrencilerin gorsel bellek kapasitesi(GBK) ve yazma becerisi(YB) uzerindeki etkisini incelemektir.Arastirma grubu, 2013-2014 guz yariyilinda Turkiye Egitim Gonulluleri Vakfi ndaki Kendime Yolculuk egitim programina katilan 59 ilkokul 2. sinif ogrencisinden olusmaktadir.Arastirma, on-test son-test kontrol gruplu seckisiz deneysel desenle gerceklestirilmistir.Deney grubundaki ogrenciler uygulama surecini DHA yaparak tamamlamislardir.Uygulama 13 hafta surmustur.Gruplarda bir gelismenin olup olmadigini ve gruplar arasinda bir farklilik olup olmadigini test etmek amaciyla hipotezler, fark puanlari elde edilerek t testi ile sinanmistir.Arastirmanin sonucunda deney ve kontrol grubunun her ikisinde ogrencilerin GBK ve YB acisindan anlamli bir gelismenin oldugu ve fark puan ortalamalarinin deney grubunda daha yuksek oldugu gorulmustur.Gruplar karsilastirildiginda, DHA ogrencilerin YB'nde anlamli bir fark yaratirken, GBK'nde yaratmamistir.
Small-Seeded Legumes as a Novel Food Source. Variation of Nutritional, Mineral and Phytochemical Profiles in the Chain: Raw Seeds-Sprouted Seeds-Microgreens

Growing public concerns about health haves prompted the search for novel food sources. The study is focused on the seeds, sprouted seeds and microgreens of Trifolium pratense, T. medium, Medicago sativa, M. lupulina, Onobrychis viciifolia, Astragalus glycyphyllos and A. cicer species as a potential source of value-added food ingredientsr. The samples were analysed for nutritional (wet chemistry, standard methods) and mineral (atomic absorption spectroscopy, UV-Vis spectrophotometry) profiles, isoflavones (ultra-performance liquid with diode array detector –UPLC-DAD), coumestrol (UPLC-DAD), condensed tannins (CT) (vanillin-H2SO4 assay) and triterpene saponins (UPLC with triple-stage quadrupole MS). In our study, each species displayed high, but species-dependent nutritional, mineral and phytochemical value. All counterparts of legumes were mineral and protein rich. A. glycyphyllos samples, especially seeds, were abundant in iron. Trifolium spp. were found to be important sources of isoflavones, Medicago spp. of coumestrol and saponins, and O. viciifolia of CT. The protein and phytochemical contents increased and total carbohydrates decreased from seeds to microgreens.Our findings proved for the first time that seeds, sprouted seeds, and especially microgreens of small-seeded legumes are promising new sources of ingredients for fortification of staple foods with bioactive compounds, minerals and nutrients.
Functional and Structural Neuroimaging Studies of Delayed Reward Discounting in Addiction: A Systematic Review

Given the robust behavioral association between delayed reward discounting (DRD) and addictive behavior, there is an expanding literature investigating the neural correlates of this relationship. The objective of this systematic review was to characterize and critically appraise the existing literature examining the neural correlates of DRD in individuals exhibiting addictive behavior using functional and structural MRI (fMRI/MRI) and to do so through the lens of the neural networks implicated in addiction. Using a systematic search strategy, 20 studies were identified, with 12 focusing on task fMRI, 4 focusing on functional connectivity fMRI, and 4 focusing on structural MRI. Behaviorally, significantly steeper DRD was present in individuals with addictive disorders across studies, reproducing earlier findings. Among individuals with addictive disorders, there was substantial evidence of greater neural activity in the executive control network during choices for larger-delayed rewards (delayed gratification) relative to choices for smaller-immediate rewards (immediate gratification), particularly in dorsolateral prefrontal cortex, as well as moderate evidence of greater recruitment of the default mode, salience, and reward valuation networks during larger-delayed choices. In functional connectivity fMRI studies, there was moderate evidence for greater connectivity between the executive control, salience, and default mode networks in individuals exhibiting addictive behavior. Structural MRI studies reported highly heterogeneous findings and no consistent conclusions could be drawn. As a whole, this review suggests consistent differences in neural activation and connectivity relating to DRD in individuals with addictive disorders. It also reveals heterogeneity of methods and findings in this line of inquiry.
Characterizing the role of the pre‐SMA in the control of speed/accuracy trade‐off with directed functional connectivity mapping and multiple solution reduction

Several plausible theories of the neural implementation of speed/accuracy trade‐off (SAT), the phenomenon in which individuals may alternately emphasize speed or accuracy during the performance of cognitive tasks, have been proposed, and multiple lines of evidence point to the involvement of the pre‐supplemental motor area (pre‐SMA). However, as the nature and directionality of the pre‐SMA's functional connections to other regions involved in cognitive control and task processing are not known, its precise role in the top‐down control of SAT remains unclear. Although recent advances in cross‐sectional path modeling provide a promising way of characterizing these connections, such models are limited by their tendency to produce multiple equivalent solutions. In a sample of healthy adults (N = 18), the current study uses the novel approach of Group Iterative Multiple Model Estimation for Multiple Solutions (GIMME‐MS) to assess directed functional connections between the pre‐SMA, other regions previously linked to control of SAT, and regions putatively involved in evidence accumulation for the decision task. Results reveal a primary role of the pre‐SMA for modulating activity in regions involved in the decision process but suggest that this region receives top‐down input from the DLPFC. Findings also demonstrate the utility of GIMME‐MS and solution‐reduction methods for obtaining valid directional inferences from connectivity path models.