Miracle-dz/UniFAR-FTUs huggingface dataset:
Comparison of Thermal and Hydrotime Requirements for Seed Germination of Seven Stipa Species From Cool and Warm Habitats

Temperature and water potential are two important environmental factors influencing germination and subsequent seedling establishment. Seed germination requirements vary with species and with the environment in which the seeds are produced. Stipa species dominate large areas of the Eurasian zonal vegetation, but comparisons of germination requirements between Stipa species from different habitats is limited. We investigated the effects of temperature and water potential on seed germination of S. grandis, S. purpurea, and S. penicillata from habitats with low temperatures and relatively abundant rainfall (cool habitats) and S. glareosa, S. breviflora, S. gobiea, and S. bungeana from habitats with relatively high temperatures and low amount of rainfall (warm habitats). Seeds of species from cool habitats had a higher base (T b), optimal (T o), and maximum (T c) temperature than those of species from warm habitats, except for the base temperature of S. purpurea. Response of six tested Stipa species to water potential differed among species but not between habitats. Median water potential for germination was lowest for S. bungeana, S. penicillata, and S. gobiea. There was a negative correlation between hydrotime constant (θ H) and base water potential for 50% of the seeds of all species to germinate (ψ b(50)). Germination time of seven Stipa species in response to temperature and water was well predicted by thermal time and hydrotime models. Results of the present study on germination of these seven species of Stipa may provide useful suggestions for grassland restoration in different habitats.
Productivity and abundance of ultra- and nanoplankton in Oslofjorden

Abstract The primary production of different size fractions of plankton from six stations in Oslofjorden, Norway, was studied by means of laboratory and in situ incubations. Ultraplankton (passing 5 μm nylon gauze) contributed 15–89 %, while nanoplankton in all (passing 45 μm nylon gauze) contributed 50–100 % to the total primary production. The in situ measurements (production per unit water surface) varied by a factor of 100 through the year in the outer part, 300 in the inner part of the fjord. In the inner part the highest recorded primary production values were five times greater than in the outer part. In summer daily production was 2.8 g G/m2 in the inner fjord and 0.6 g C/m2 in the outer part.
The Cumulative Effects of Fishing, Plankton Productivity, and Marine Mammal Consumption in a Marine Ecosystem

The marine ecosystem off British Columbia (BC), Canada, has experienced various changes in the last two decades, including reduced lipid-rich zooplankton biomass, increased marine mammals, and deteriorated commercial fisheries, particularly those targeting pelagic species such as Pacific Herring (Clupea pallasii). Understanding how stressors interactively and cumulatively affect commercially important fish species is key to moving toward ecosystem-based fisheries management. Because it is challenging to assess the cumulative effects of multiple stressors by using empirical data alone, a dynamic, individual-based spatially explicit ecosystem modeling platform such as Object-oriented Simulator of Marine Ecosystems (OSMOSE) represents a valuable tool to simulate ecological processes and comprehensively evaluate how stressors cumulatively impact modeled species. In this study, we employed OSMOSE to investigate the cumulative effects of fishing, plankton biomass change, and marine mammal consumption on the dynamics of some fish species and the BC marine ecosystem as a whole. We specifically simulated ecosystem dynamics during the last 20 years under two sets of scenarios: (1) unfavorable conditions from the perspective of commercial fish species (i.e., doubling fishing mortality rates, halving plankton biomass, and doubling marine mammal biomass, acting individually or collectively); and (2) favorable conditions with the three factors having opposite changes (i.e., halving fishing mortality rates, doubling plankton biomass, and halving marine mammal biomass, acting individually or collectively). Our results indicate that, under unfavorable conditions, the degree to which species biomass was reduced varied among species, and that negative synergistic and negative dampened effects were dominant under historical and doubled fishing mortality rates, respectively. Under favorable conditions, species biomasses did not increase as much as expected due to the existence of complex predator-prey interactions among fish species, and positive synergistic and positive dampened effects were prevailing under historical and halved fishing mortality rates, respectively. The ecosystem total biomass and the biomass to fisheries yield ratio were found to be good ecological indicators to represent ecosystem changes and track the impacts from the multiple drivers of change. Our research provides insights on how fisheries management should adapt to prepare for potential future impacts of climate change.
Genetic Variability and Correlation Analysis in Indian Mustard [Brassica juncea (L.) Czern & Coss.] under Drought Stress

Genetic variation study in Indian mustard [Brassica juncea (L.) Czern & Coss. ] revealed low phenotypic and genotypic variability for days to maturity and oil content but substantial for secondary branches/plant, biological yield/plant, seed yield/plant, plant height, primary branches/plant and siliquae on main shoot. The seed weight had high heritability with high genetic advance implying that additive gene effects were mainly responsible for the expression of the character. Seed yield/plant was positively and significantly correlated at both phenotypic and genotypic levels with days to maturity, plant height, primary branches/plant, secondary branches/plant, siliquae on main shoot and biological yield/plant. Selection for higher 1000-seed weight would bring forth positive correlated response in oil content owing to its positive genetic correlation with oil content. Indirect selection for high oil content through seed size might reduce siliquae on main shoot due to its negative genetic correlation of moderate magnitude with oil content. Positive association of days to maturity and plant height with seed yield is undesirable; therefore, efforts should be made to break this linkage by resorting to bi-parental mating to breed for varieties having earliness, short plant stature and high oil content in Brassica juncea.
Photosynthetic and Respiratory Acclimation of Understory Shrubs in Response to in situ Experimental Warming of a Wet Tropical Forest

Despite the importance of tropical forests to global carbon balance, our understanding of how tropical plant physiology will respond to climate warming is limited. In addition, the contribution of tropical forest understories to global carbon cycling is predicted to increase with rising temperatures, however, in situ warming studies of tropical forest plants to date focus only on upper canopies. We present results of an in situ field-scale +4°C understory infrared warming experiment in Puerto Rico (Tropical Responses to Altered Climate Experiment; TRACE). We investigated gas exchange responses of two common understory shrubs, Psychotria brachiata and Piper glabrescens, after exposure to 4 and 8 months warming. We assessed physiological acclimation in two ways: (1) by comparing plot-level physiological responses in heated versus control treatments before and after warming, and (2) by examining physiological responses of individual plants to variation in environmental drivers across all plots, seasons, and treatments. P. brachiata has the capacity to up-regulate (i.e., acclimate) photosynthesis through broadened thermal niche and up-regulation of photosynthetic temperature optimum (Topt) with warmer temperatures. P. glabrescens, however, did not upregulate any photosynthetic parameter, but rather experienced declines in the rate of photosynthesis at the optimum temperature (Aopt), corresponding with lower stomatal conductance under warmer daily temperatures. Contrary to expectation, neither species showed strong evidence for respiratory acclimation. P. brachiata down-regulated basal respiration with warmer daily temperatures during the drier winter months only. P. glabrescens showed no evidence of respiratory acclimation. Unexpectedly, soil moisture, was the strongest environmental driver of daily physiological temperature responses, not vegetation temperature. Topt increased, while photosynthesis and basal respiration declined as soils dried, suggesting that drier conditions negatively affected carbon uptake for both species. Overall, P. brachiata, an early successional shrub, showed higher acclimation potential to daily temperature variations, potentially mitigating negative effects of chronic warming. The negative photosynthetic response to warming experienced by P. glabrescens, a mid-successional shrub, suggests that this species may not be able to as successfully tolerate future, warmer temperatures. These results highlight the importance of considering species when assessing climate change and relay the importance of soil moisture on plant function in large-scale warming experiments.
Sodium Danshensu Inhibits Oral Cancer Cell Migration and Invasion by Modulating p38 Signaling Pathway

Background: Oral squamous cell carcinoma (OSCC) that comprises about 90% of all oral cancer cases is associated with poor prognosis due to its highly metastatic nature. The majority of OSCC treatment options are related detrimental side-effects. Hypothesis/Purpose: The present study aimed at deciphering the effects of a bioactive phytochemical, sodium danshensu, on human oral cancer cell metastasis. Methods and Results: The treatment of FaDu and Ca9-22 cells with different doses of sodium danshensu (25, 50, and 100 μM) caused a significant reduction in cellular motility, migration, and invasion, as compared to the untreated cells. This effect was associated with a reduced expression of MMP-2, vimentin and N-cadherin, together with an enhanced expression of E-cadherin and ZO-1. Further investigation on the molecular mechanism revealed that treatment with sodium danshensu caused significant reduction in p38 phosphorylation; however, phosphorylation of ERK1/2 significantly decreased only in FaDu cells, whereas p-JNK1/2 did not show any alteration. A combination of p38 and JNK1/2 inhibitors with sodium danshensu also reduced the migration in the FaDu and Ca9-22 cell lines. Conclusion: Collectively, the present study findings reveal that sodium danshensu execute anti-metastatic effect by suppressing p38 phosphorylation in human oral cancer. The study identifies sodium danshensu as a potential natural anticancer agent that can be used therapeutically to manage highly metastatic OSCC.
When Large-Scale Assessments Meet Data Science: The Big-Fish-Little-Pond Effect in Fourth- and Eighth-Grade Mathematics Across Nations

The programming language of R has useful data science tools that can automate analysis of large-scale educational assessment data such as those available from the United States Department of Education’s National Center for Education Statistics (NCES). This study used three R packages: EdSurvey, MplusAutomation, and tidyverse to examine the big-fish-little-pond effect (BFLPE) in 56 countries in fourth grade and 46 countries in eighth grade for the subject of mathematics with data from the Trends in International Mathematics and Science Study (TIMSS) 2015. The BFLPE refers to the phenomenon that students in higher-achieving contexts tend to have lower self-concept than similarly able students in lower-achieving contexts due to social comparison. In this study, it is used as a substantive theory to illustrate the implementation of data science tools to carry out large-scale cross-national analysis. For each country and grade, two statistical models were applied for cross-level measurement invariance testing, and for testing the BFLPE, respectively. The first model was a multilevel confirmatory factor analysis for the measurement of mathematics self-concept using three items. The second model was multilevel latent variable modeling that decomposed the effect of achievement on self-concept into between and within components; the difference between them was the contextual effect of the BFLPE. The BFLPE was found in 51 of the 56 countries in fourth grade and 44 of the 46 countries in eighth grade. The study provides syntax and discusses problems encountered while using the tools for modeling and processing of modeling results.
Chinese guqin music and calligraphy for treating symptoms of primary insomnia

Purpose: To investigate the intervention effects of using traditional Chinese Guqin music and Chinese Calligraphy handwriting (CCH) for patients with Primary Insomnia. Methods: A total of ninety patients were assigned to control group, Guqin group, and calligraphy group for 8 weeks. For 5 days a week, patients' heart rate variability (HRV) and frontal midline (FZ) electroencephalographic signals were recorded in a clinic during interventional period while either listening to Guqin music or writing calligraphy. Patients in the control group remained in rest condition. Results: For the Guqin group, the higher low-frequency-range HRV of coherence was found with marginal significance (P = 0.055), and heart rate was significantly reduced (P < 0.05) during the 4th week in listening to Guqin music compared to the prerest period. For listening to Guqin music or calligraphy intervention, FZ δ, FZ θ, and FZ α waves in the 8th week compared to the 0th week (Pre Intervention) showed a significantly enhanced effect (P < 0.05). Between the three groups, for heart rate and FZ δ and FZ θ waves, calligraphy group showed significantly increased heart rate than the Guqin group (P < 0.001)and the control group (P = 0.004); increased FZ δ wave than the Guqin group (P < 0.001) and the control group (P < 0.001); and increased FZ θ wave than the Guqin group (P = 0.024) and the control group (P = 0.008) respectively. Conclusion: Positive intervention effects on HRV coherence of Guqin music; FZ δ, FZ θ, and FZ α waves of Guqin music and calligraphy proved that Guqin music together with calligraphy training helping to promote physical and mental health, thereby it contributes to the clinical application of TCM Psychology for patients with insomnia syndrome.
Candida in Lower Respiratory Tract Increases the Frequency of Acute Exacerbation of Chronic Obstructive Pulmonary Disease: A Retrospective Case-Control Study

Objective: To explore impact of Candida on the acute exacerbation of chronic obstructive pulmonary disease (AECOPD) outcome. Methods: A retrospective, multi-center, case-control study was performed. Patients hospitalized for AECOPD in 25 centers during Jan 2011–Dec 2016 were enrolled. Data were collected, including demographic information, conditions during the stable phase of COPD, clinical characteristics of AECOPD, and follow-up information within 1 year after discharge. Univariate analysis and binary logistic regression were applied, and p < 0.05 was regarded as significant. Results: Totally 1,103 patients were analyzed, with 644 lower respiratory airway (LTR) Candida positive cases and 459 Candida negative controls. Long-term prognosis was significantly different between Candida positive and negative group, including the recurrent AECOPD within 180 days (75.5 vs. 6.6%, p < 0.001) and mortality within 1 year (6.9 vs. 0.4%, p < 0.001). Univariate logistic analysis showed that LTR Candida isolation was related to higher recurrence rate of AECOPD within 180 days and mortality within 1 year. Binary logistic regression analysis demonstrated that LTR Candida isolation was independently associated with recurrence of AECOPD within 180 days. Conclusions: LTR Candida isolation was associated with worse long-term prognosis of AECOPD and independently related to higher risks of recurrent AECOPD within 180 days.
Total Flavones of Abelmoschus manihot Remodels Gut Microbiota and Inhibits Microinflammation in Chronic Renal Failure Progression by Targeting Autophagy-Mediated Macrophage Polarization

Background Recently, progression of chronic renal failure (CRF) has been closely associated with gut microbiota dysbiosis and intestinal metabolite-derived microinflammation. In China, total flavones of Abelmoschus manihot (TFA), a component of Abelmoschus manihot, has been widely used to delay CRF progression in clinics for the past two decades. However, the overall therapeutic mechanisms remain obscure. In this study, we designed experiments to investigate the renoprotective effects of TFA in CRF progression and its underlying mechanisms involved in gut microbiota and microinflammation, compared with febuxostat (FEB), a potent non-purine selective inhibitor of xanthine oxidase. Methods In vivo, the CRF rat models were induced by uninephrectomy, potassium oxonate, and proinflammatory diet, and received either TFA suspension, FEB, or vehicle after modeling for 28 days. In vitro, the RAW 264.7 cells were exposed to lipopolysaccharide (LPS) with or without TFA or FEB. Changes in parameters related to renal injury, gut microbiota dysbiosis, gut-derived metabolites, and microinflammation were analyzed in vivo. Changes in macrophage polarization and autophagy and its related signaling were analyzed both in vivo and in vitro. Results For the modified CRF model rats, the administration of TFA and FEB improved renal injury, including renal dysfunction and renal tubulointerstitial lesions; remodeled gut microbiota dysbiosis, including decreased Bacteroidales and Lactobacillales and increased Erysipelotrichales; regulated gut-derived metabolites, including d-amino acid oxidase, serine racemase, d-serine, and l-serine; inhibited microinflammation, including interleukin 1β (IL1β), tumor necrosis factor-α, and nuclear factor-κB; and modulated macrophage polarization, including markers of M1/M2 macrophages. More importantly, TFA and FEB reversed the expression of beclin1 (BECN1) and phosphorylation of p62 protein and light chain 3 (LC3) conversion in the kidneys by activating the adenosine monophosphate-activated protein kinase-sirtuin 1 (AMPK-SIRT1) signaling. Further, TFA and FEB have similar effects on macrophage polarization and autophagy and its related signaling in vitro. Conclusion In this study, we demonstrated that TFA, similar to FEB, exerts its renoprotective effects partially by therapeutically remodeling gut microbiota dysbiosis and inhibiting intestinal metabolite-derived microinflammation. This is achieved by adjusting autophagy-mediated macrophage polarization through AMPK-SIRT1 signaling. These findings provide more accurate information on the role of TFA in delaying CRF progression.
Is Herd Immunity Against SARS-CoV-2 a Silver Lining?

1 Preclinical Department, Royal College of Medicine Perak (UniKL RCMP), Universiti Kuala Lumpur, Ipoh, Malaysia, 2 Infectious Diseases Laboratory, YRG Centre for AIDS Research and Education, Chennai, India, 3 Infection Biology, Department of Life Sciences, Central University of Tamil Nadu, Thiruvarur, India, 4 Division of Microbiology and Immunology, Yerkes National Primate Research Center, Emory University, Atlanta, GA, United States, 5 Department of Pathology and Laboratory Medicine, Emory Vaccine Center, Emory University, Atlanta, GA, United States, 6 Central Research Facility, Sri Ramachandra Institute of Higher Education and Research, Chennai, India
Hypoxia Promotes Syndecan-3 Expression in the Tumor Microenvironment

The syndecan (Sdc) family is comprised of four members of cell surface molecules (Sdc-1 to 4) with different biological functions. Syndecan-3 (Sdc-3) is known to be mainly expressed in the brain and nervous tissue and plays a key role in development, cell adhesion, and migration. Recent studies point to important roles for Sdc-3 in inflammatory disease, but the patterns of expression and significance of Sdc-3 in cancer remains unexplored. Here we show that Sdc-3 expression is upregulated on several cancer types, especially in solid tumors that are known to be hypoxic. The Cancer Genome Atlas program (TCGA) data demonstrated that Sdc-3 expression in the tumor microenvironment positively correlates with a hypoxia gene signature. To confirm a potential cause-effect, we performed experiments with tumor cell lines showing increased expression upon in vitro exposure to 1% oxygen or dimethyloxalylglycine, an inhibitor of prolyl hydroxylases, indicating that Sdc-3 expression is promoted by hypoxia inducible factors (HIFs). HIF-1α was responsible for this upregulation as confirmed by CRISPR-engineered tumor cells. Using single-cell RNA sequencing data of melanoma patients, we show that Sdc-3 is expressed on tumor associated macrophages, cancer cells, and endothelial cells. Syndecan-3 expression positively correlated with a macrophage gene signature across several TCGA cancer types. In vitro experiments demonstrated that hypoxia (1% oxygen) or treatment with IFN-γ stimulate Sdc-3 expression on RAW-264.7 derived macrophages, linking Sdc-3 expression to a proinflammatory response. Syndecan-3 expression correlates with a better patient overall survival in hypoxic melanoma tumors.
Potassium Starvation Increases Stomatal Conductance in Olive Trees

The effects of potassium (K) status and water availability in the growth medium on growth, water content, water-use effi ciency and stomatal conductance was studied in mist-rooted 'Chemlali de Sfax' olive (Olea europaea L.) cuttings grown in a perlite sub- strate. Potassium starvation produced dehydration of all parts of the plant, reduced shoot growth and water-use effi ciency. By contrast, K starvation enhanced stomatal conductance in well-irrigated plants and, even more, in water-stressed plants. These results suggest that moderate K defi ciency in olives may impair the plant's ability to regulate stomatal closure; this may account for the dehydration observed in K-starved plants, particularly in situations of water stress. This result is of great importance for agricultural practices of this crop, because K status, which may not be considered defi cient, can cause disorders in olive trees. The olive (Olea europaea) is grown in areas with a Mediterranean climate. Worldwide, the crop occupies a total surface area of 10 × 10 6
Determination of natural radioactivity levels and gamma radiation attenuation coefficients in propolis samples and the study of its antioxidant properties

Abstract Thanks to its rich content, propolis has been used to protect the hive from all kinds of external influences and for disinfection by bees. Furthermore, it is an important marker for monitoring environmental pollution because the main sources of propolis are plant and secretions. So, the present study aimed to research radiation attenuation capability and the natural radioactivity level of propolis samples. For this reason, both natural radioactivity concentrations (226Ra, 232Th and 40K) and attenuation coefficients (Linear and Mass) in the propolis samples collected from 10 different points in Turkey were measured using high purity germanium detector (HPGe). The average natural radioactivity concentrations in samples were found to be 0.56 ± 0.19, 2.65 ± 0.31 and 70.08 ± 2.42 Bq/kg for 226Ra, 232Th and 40K, respectively. These values were much lower than the average world values (35 Bq/kg for 226Ra, 30 Bq/kg for 232Th and 400 Bq/kg for 40K) reported by United Nations Scientific Committee on Effects of Atomic Radiation (UNSCEAR) in foodstuff. The average linear attenuation coefficient, mass attenuation coefficients and half value layer values for gamma rays with 59.54 keV energy were determined as 0.1970 cm−1, 0.1831 cm2 g−1 and 3.56 cm, respectively. In addition, antioxidant properties of the samples were measured using total phenolic content and ferric reducing antioxidant power. Their correlations with radioactivity were investigated.