Miracle-dz/UniFAR-FTUs huggingface dataset:
Taxonomic and Functional Dysregulation in Salivary Microbiomes During Oral Carcinogenesis

Exploring microbial community compositions in humans with healthy versus diseased states is crucial to understand the microbe-host interplay associated with the disease progression. Although the relationship between oral cancer and microbiome was previously established, it remained controversial, and yet the ecological characteristics and their responses to oral carcinogenesis have not been well studied. Here, using the bacterial 16S rRNA gene amplicon sequencing along with the in silico function analysis by PICRUSt2 (Phylogenetic Investigation of Communities by Reconstruction of Unobserved States 2), we systematically characterized the compositions and the ecological drivers of saliva microbiome in the cohorts of orally healthy, non-recurrent oral verrucous hyperplasia (a pre-cancer lesion), and oral verrucous hyperplasia–associated oral cancer at taxonomic and function levels, and compared them with the re-analysis of publicly available datasets. Diversity analyses showed that microbiome dysbiosis in saliva was significantly linked to oral health status. As oral health deteriorated, the number of core species declined, and metabolic pathways predicted by PICRUSt2 were dysregulated. Partitioned beta-diversity revealed an extremely high species turnover but low function turnover. Functional beta-diversity in saliva microbiome shifted from turnover to nestedness during oral carcinogenesis, which was not observed at taxonomic levels. Correspondingly, the quantitative analysis of stochasticity ratios showed that drivers of microbial composition and functional gene content of saliva microbiomes were primarily governed by the stochastic processes, yet the driver of functional gene content shifted toward deterministic processes as oral cancer developed. Re-analysis of publicly accessible datasets supported not only the distinctive family taxa of Veillonellaceae and Actinomycetaceae present in normal cohorts but also that Flavobacteriaceae and Peptostreptococcaceae as well as the dysregulated metabolic pathways of nucleotides, amino acids, fatty acids, and cell structure were related to oral cancer. Using predicted functional profiles to elucidate the correlations to the oral health status shows superior performance than using taxonomic data among different studies. These findings advance our understanding of the oral ecosystem in relation to oral carcinogenesis and provide a new direction to the development of microbiome-based tools to study the interplay of the oral microbiome, metabolites, and host health.
Soil Fungal Community in Grazed Inner Mongolian Grassland Adjacent to Coal-Mining Activity

Coal mining results in reduced soil quality and makes environments less stable. Soil fungi are suitable indicators of soil quality for monitoring purposes. Here, the objective was therefore to investigate the effects of grazing and mining on the composition of the soil fungal community at the periphery of an opencast coal-mine dump in the Shengli mining area, Xilingol League, Inner Mongolia. A total of 2,110 fungal operational taxonomic units were identified and subdivided into 81 orders and nine categories, based on trophic modes. The sensitive factor to mining was soil pH, and that to grazing were soil nitrate-nitrogen and alkaline phosphatase activity. According to the Pearson correlation and Mantel test, we propose interactions between grazing and coal-mining exist a co-effect and could regulate edaphic variables to alter the behavior of soil fungal community. Moreover, compared with coal-mining, grazing has a greater impact on it. The results provide a basis to further clarify soil fungal ecological functions, and may also contribute to the practice of soil remediation and environmental management in coal-mining areas.
Subtle Signals of Status on Social Network Sites: Evidence From China

Social network sites (SNS) have been indispensable channels for people to access information, present themselves, and conduct commercial activities. Existing literature on online consumer behavior mainly focus on Western consumers and on explicit conspicuous signals. However, reports have shown that SNS users in China have exceeded 370 million, ranking the first in the world. Meanwhile, more and more consumers display status in more implicit ways nowadays. To fill these gaps, the present research was conducted to investigate the subtle signals of status for Chinese consumers on SNS. We proposed that frequent SNS posting leads to higher status perception among Chinese consumers. The psychological process of this effect is perceived busyness. These hypotheses received convergent support in a set of three studies. Study 1 used secondary data to preliminarily verify the positive correlation between SNS posting frequency and perceived social status. Studies 2A and 2B adopted the causal chain method to test the underlying mechanism of the effect, and to provide causal evidence for the entire relationship chain. Specifically, Study 2A examined how SNS posting frequency affects perceived busyness. Furthermore, Study 2B explored whether the differences in perceived busyness will affect social status perceptions. Implications of these findings and potential extensions in future are discussed.
Low Genetic Connectivity of Strongly Inbred Ruppia brevipedunculata in Aquaculture Dominated Lagoons (Viet Nam)

Lagoonal environments exhibit high levels of instability depending on hydrological, climatic and ecological factors, thereby influencing the distribution and structure of submerged plant communities. Conditions typically fluctuate widely due to the interaction of freshwater from rivers with saltwater from the sea, as well as from aquaculture activities that together influence submerged hydrophyte community spatial and temporal variability depending on plant survival strategies. Ruppia species feature either underwater pollination mediated by an air bubble or by the release of pollen floating at the water surface, the former promoting self-pollination. Tropical Asian Ruppia brevipedunculata Yu and den Hartog was assumed to pollinate below the water surface and identified as a separate lineage among selfed Ruppia taxa. We used nine nuclear microsatellites to estimate inbreeding levels and connectivity of R. brevipedunculata within a large SE Asian lagoon complex. Ruppia brevipedunculata meadows were strongly inbred as could be derived from the many monomorphic or totally fixed loci for unique alleles in different parts of the lagoon, which appears consistent with selfing behavior. Those from aquaculture ponds were highly inbred (FIS = 0.620), though less than open lagoon sites that showed nearly total inbreeding (FIS = 0.942). Ruppia brevipedunculata from two major lagoon parts were highly differentiated with spatially structured gene pools and a strong barrier between parts of the lagoon over a 30 km distance. Migration-n analysis indicated unidirectional though limited gene flow and following potential hydrological connectivity. Overall, private alleles under homozygote conditions explained a stronger genetic differentiation of populations situated inside aquaculture ponds than of open lagoon populations. Kinship values were only relevant up to 5 km distance in the open lagoon. Within a confined area of aquaculture ponds featuring dense vegetation in stagnant water, there would be opportunity for mixed pollination, thereby explaining the higher diversity of unique multilocus genotypes of aquaculture pond habitats. Low connectivity prevents gene pools to homogenize however promoted sites with private alleles across the lagoon. Complex hydrodynamic systems and human-made habitats enclosed by physical structures impose barriers for propagule dispersal though may create refugia and contribute to conserving regional genetic diversity.
Novel Morphological Features on CMR for the Prediction of Pathogenic Sarcomere Gene Variants in Subjects Without Hypertrophic Cardiomyopathy

Background: Carriers of pathogenic DNA variants (G+) causing hypertrophic cardiomyopathy (HCM) can be identified by genetic testing. Several abnormalities have been brought forth as pre-clinical expressions of HCM, some of which can be identified by cardiovascular magnetic resonance (CMR). In this study, we assessed morphological differences between G+/left ventricular hypertrophy-negative (LVH-) subjects and healthy controls and examined whether CMR-derived variables are useful for the prediction of sarcomere gene variants. Methods: We studied 57 G+ subjects with a maximal wall thickness (MWT) < 13 mm, and compared them to 40 healthy controls matched for age and sex on a group level. Subjects underwent CMR including morphological, volumetric and function assessment. Logistic regression analysis was performed for the determination of predictive CMR characteristics, by which a scoring system for G+ status was constructed. Results: G+/LVH- subjects were subject to alterations in the myocardial architecture, resulting in a thinner posterior wall thickness (PWT), higher interventricular septal wall/PWT ratio and MWT/PWT ratio. Prominent hook-shaped configurations of the anterobasal segment were only observed in this group. A model consisting of the anterobasal hook, multiple myocardial crypts, right ventricular/left ventricular ratio, MWT/PWT ratio, and MWT/left ventricular mass ratio predicted G+ status with an area under the curve of 0.92 [0.87–0.97]. A score of ≥3 was present only in G+ subjects, identifying 56% of the G+/LVH- population. Conclusion: A score system incorporating CMR-derived variables correctly identified 56% of G+ subjects. Our results provide further insights into the wide phenotypic spectrum of G+/LVH- subjects and demonstrate the utility of several novel morphological features. If genetic testing for some reason cannot be performed, CMR and our purposed score system can be used to detect possible G+ carriers and to aid planning of the control intervals.
Clinical Features and Serological Markers Risk Model Predicts Overall Survival in Patients Undergoing Breast Cancer and Bone Metastasis Surgeries

Background Surgical therapy of breast cancer and bone metastasis can effectively improve the prognosis of breast cancer. However, after the first operation, the relationship between preoperative indicators and outcomes in patients who underwent metastatic bone surgery remained to be studied. Purpose 1. Recognize clinical and laboratory prognosis factors available to clinical doctors before the operation for bone metastatic breast cancer patients. 2. Develop a risk prediction model for 3-year postoperative survival in patients with breast cancer bone metastasis. Methods From 2014 to 2020, patients who suffered from breast cancer bone metastasis and received therapeutic procedures in our institution were included for analyses (n=145). For patients who underwent both breast cancer radical surgery and bone metastasis surgery, comprehensive datasets of the parameters of interest (clinical features, laboratory factors, and patient prognoses) were collected (n=69). We performed Multivariate Cox regression to identify factors that were associated with postoperative outcome. 3-year survival prediction model and nomograms were established by 100 bootstrapping. Its benefit was evaluated by calibration plot, C-index, and decision curve analysis. The Surveillance, Epidemiology, and End Results database was also used for external validation. Results Radiotherapy for primary cancer, pathological type of metastatic breast cancer, lymph node metastasis, elevated serum alkaline phosphatase, lactate dehydrogenase were associated with postoperative prognosis. Pathological types of metastatic breast cancer, multiple bone metastasis, organ metastases, and elevated serum lactate dehydrogenase were associated with 3-year survival. Then those significant variables and serum alkaline phosphatase counts were integrated to construct nomograms for 3-year survival. The C-statistic of the established predictive model was 0.83. The calibration plot presents a graphical representation of calibration. In the decision curve analysis, the benefits are higher than those of the extreme curve. The receiver operating characteristic of the external validation of the model was 0.82, indicating a favored fitting degree of the two models. Conclusion Our study suggests that several clinical features and serological markers can predict the overall survival among the patients who are about to receive bone metastasis surgery after breast cancer surgery. The model can guide the preoperative evaluation and clinical decision-making for patients. Level of evidence Level III, prognostic study.
Heterogeneity Characteristics of Lacustrine Shale Oil Reservoir Under the Control of Lithofacies: A Case Study of the Dongyuemiao Member of Jurassic Ziliujing Formation, Sichuan Basin

The lacustrine shale in the Dongyuemiao Member of the Fuling area, Sichuan Basin, is widely distributed and has huge shale oil resource potential. It is one of the important replacement areas for shale oil exploration in China. To investigate the key shale oil evaluation well, Well FY10, in the Fuling area, X-ray diffraction (XRD) mineral analysis, Rock-Eval, argon ion polishing-scanning electron microscope (SEM), Mercury injection capillary pressure (MICP), and low pressure nitrogen adsorption were launched to determine the heterogeneity of the pore system in the lacustrine shale of the Dongyuemiao Member. The mineral composition exhibits a high degree of heterogeneity, and the shale can be divided into two main lithofacies: argillaceous shale and mixed shale. The porosity ranges from 2.95 to 8.43%, and the permeability ranges from 0.05 to 1.07 × 10−3 μm2. The physical properties of mixed shale are obviously better than those of argillaceous shale. Inorganic mineral pores, such as linear pores between clay minerals and calcite dissolution pores, are mainly developed, while a small amount of organic pores can be observed. The average total pore volume (Vp) is 0.038 ml/g with an average specific surface area of 5.38 m2/g. Mesopores provide the main Vp (average 61.72%), and micropores provide mostly specific surface area. TOC imposes a strong controlling effect on the development of micropores. Clay minerals are the main contributors to mesopores and macropores. The organic-inorganic interaction during the process of diagenesis and hydrocarbon generation controls the formation of shale pore systems.
A Multimodal Risk Network Predicts Executive Function Trajectories in Non-demented Aging

Background: Multiple modalities of Alzheimer’s disease (AD) risk factors may operate through interacting networks to predict differential cognitive trajectories in asymptomatic aging. We test such a network in a series of three analytic steps. First, we test independent associations between three risk scores (functional-health, lifestyle-reserve, and a combined multimodal risk score) and cognitive [executive function (EF)] trajectories. Second, we test whether all three associations are moderated by the most penetrant AD genetic risk [Apolipoprotein E (APOE) ε4+ allele]. Third, we test whether a non-APOE AD genetic risk score further moderates these APOE × multimodal risk score associations. Methods: We assembled a longitudinal data set (spanning a 40-year band of aging, 53–95 years) with non-demented older adults (baseline n = 602; Mage = 70.63(8.70) years; 66% female) from the Victoria Longitudinal Study (VLS). The measures included for each modifiable risk score were: (1) functional-health [pulse pressure (PP), grip strength, and body mass index], (2) lifestyle-reserve (physical, social, cognitive-integrative, cognitive-novel activities, and education), and (3) the combination of functional-health and lifestyle-reserve risk scores. Two AD genetic risk markers included (1) APOE and (2) a combined AD-genetic risk score (AD-GRS) comprised of three single nucleotide polymorphisms (SNPs; Clusterin[rs11136000], Complement receptor 1[rs6656401], Phosphatidylinositol binding clathrin assembly protein[rs3851179]). The analytics included confirmatory factor analysis (CFA), longitudinal invariance testing, and latent growth curve modeling. Structural path analyses were deployed to test and compare prediction models for EF performance and change. Results: First, separate analyses showed that higher functional-health risk scores, lifestyle-reserve risk scores, and the combined score, predicted poorer EF performance and steeper decline. Second, APOE and AD-GRS moderated the association between functional-health risk score and the combined risk score, on EF performance and change. Specifically, only older adults in the APOEε4− group showed steeper EF decline with high risk scores on both functional-health and combined risk score. Both associations were further magnified for adults with high AD-GRS. Conclusion: The present multimodal AD risk network approach incorporated both modifiable and genetic risk scores to predict EF trajectories. The results add an additional degree of precision to risk profile calculations for asymptomatic aging populations.
The Relationship Between Perceived Stress, State-Trait Anxiety, and Sleep Quality Among University Graduates in China During the COVID-19 Pandemic

The study aimed to investigate the relationship among perceived stress, state-trait anxiety, and sleep quality of graduates to provide a reference for improving their psychological status and attitude adjustment of job-searching during the COVID-19 pandemic. The research was conducted in a descriptive cross-sectional online survey between May 2020 and August 2020. The data were collected from 1,200 participants by using the personal information form prepared by the researchers in line with the literature, the Perceived Stress Scale, the State-Trait Anxiety Inventory, and the Pittsburgh Sleep Quality Index (PSQI). Among the surveyed participants, 47.67% were female, and 10.92% were medical students. The mean perceived stress, state anxiety, trait anxiety, and sleep quality were moderate and found as 31.4±6.69, 46.67±5.80, 49.45±5.54, and 5.94±2.47, respectively. The detection rates of state anxiety and trait anxiety were 48.63 and 49.50%, respectively. There was no significant difference in the detection rate of state anxiety and trait anxiety among different genders and majors (p >0.05). The detection rate of state anxiety and trait anxiety of rural family students was higher than that of urban family students (p <0.01). The score on the PSQI was positively associated with the scores on the perceived stress, state anxiety, and trait anxiety scales (p <0.001 for each model). Sleep quality was associated with increased perceived stress, state anxiety, and trait anxiety among graduates in China. Collectively, the study revealed the relationship between perceived stress, state-trait anxiety, and sleep quality among university graduates in China during the COVID-19 pandemic. Our results offer novel practical implications for all circles of the society to ensure students’ health under the context of the COVID-19 epidemic.
Prokaryotic and Eukaryotic Fecal Microbiota in Irritable Bowel Syndrome Patients and Healthy Individuals Colonized With Blastocystis

Blastocystis is the most frequently isolated protozoan from human stool. Its role in human health is still debated, and a high prevalence was reported in irritable bowel syndrome (IBS) subjects, suggesting a potential link with microbiota. In the present study, we aimed to investigate prokaryotic and eukaryotic microbiota in both IBS-C (constipated) and healthy individuals. We recruited 35 IBS-C patients and 23 healthy subjects, from which 12 and 11 carried Blastocystis, respectively. We performed 16S and 18S rRNA high-throughput sequencing on feces. Whereas we did not observe differences between infected and non-infected controls, several phyla were significantly modified in IBS-C patients according to the presence of Blastocystis. Tenericutes phylum and Ruminococcaceae family were especially increased in Blastocystis carriers. Furthermore, colonization with Blastocystis was associated with discrete changes in the microbial eukaryome, particularly among the Fungi taxa. Depending on the group of patients considered, the mycobiota changes do not go in the same direction and seem more deleterious in the IBS-C group. These results encourage further in vivo and in vitro investigations concerning the role of Blastocystis in the gut environment.
Psychological Balance Scale: Validation Studies of an Integrative Measure of Well-Being

Studies infer Psychological Balance from the absence of psychopathology. In this article, we investigated this construct as an antecedent of well-being. We present empirical evidence toward the validation of a new theoretical model regarding Psychological Balance, a dynamic state with relatively constant characteristics, comprising Consistency and Flexibility and influenced by a Self/Others Ratio. A battery of 31 items, as indicators of Consistency, Flexibility, and Self/Others Ratio, aided this empirical investigation. In an online study (N = 933), we collected cross-sectional data from the United Kingdom. Results of cross-validation analyses provided evidence toward the validity of the proposed model and the psychometric properties of its instrument. There were statistically significant associations between Consistency (i.e., degree of integration of a universal value structure as self-related characteristics that motivate personal goals and behavior), Flexibility (i.e., degree of ability to re-define meaningful and important goals in response to situational challenge), and five well-being variables (e.g., Meaning in Life). Self/Others Ratio (i.e., ratio of motivation to serve self-interest and the interest of others), operationalized as a binary variable (e.g., close and away from 1), moderated some of these associations. Altogether, this work may contribute toward a nuanced understanding of well-being and form the basis of interventions that aim to decrease emotional discomfort and increase meaning, happiness, and life satisfaction.
Natural Colorants from Cosmos Sulphureus Cav. and Tagetes Erecta L.: Extraction And Characterization

Ionic liquids demonstrated successful potential applications in the industry most specifically as the new generation of solvents for catalysis and synthesis in chemical processes, thus knowledge of their physico-chemical properties is of great advantage. The present work presents a mathematical correlation that predicts density of binary mixtures of ionic liquids with various alcohols (ethanol/methanol/1-propanol). The artificial neural network algorithm was used to predict these properties based on the variations in temperature, mole fraction, number of carbon atoms in the cation, number of atoms in the anion, number of hydrogen atoms in the anion and number of carbon atoms in the alcohol. The data used for the calculations were taken from ILThermo Database. Total experimental data points of 1946 for the considered binaries were used to train the algorithm and to test the network obtained. The best neural network architecture determined was found to be 6-6-10-1 with a mean absolute error of 48.74 kg/m3. The resulting correlation satisfactorily represents the considered binary systems and can be used accurately for solvent related calculations requiring properties of these systems.
The Ups and Downs of Amyloid in Alzheimer’s

Very recently, the Food and Drug Administration (FDA) in the United States gave an “accelerated approval” to aducanumab, the first new drug to be available to patients with Alzheimer’s disease (AD) in nearly two decades and the first ever that targets the underlying neuropathology. The accelerated approval pathway is based on a biomarker effect, in this case reduction in brain amyloid as measured by PET scan, that is “reasonably likely” to predict clinical efficacy. While there were numerous complexities surrounding the approval, this event was nevertheless seminal for the treatment of AD and for the amyloid hypothesis.