bluuebunny/crossref_metadata_2025_split huggingface dataset:
Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2
Authors: Wang ZhiGang , He YongQun , Huang Jing , Yang XiaoLin 
Published: May 2021

AbstractResearch on drugs against SARS-CoV-2 (cause of COVID-19) has been one of the major world concerns at present. There have been abundant research data and findings in this field. The interference of drugs on gene expression in cell lines, drug-target, protein-virus receptor networks, and immune cell infiltration of the host may provide useful information for anti-SARS-CoV-2 drug research. To simplify the complex bioinformatics analysis and facilitate the evaluation of the latest research data, we developed OmiczViz (http://medcode.link/omicsviz), a web tool that has integrated drug-cell line interference data, virus-host protein–protein interactions, and drug-target interactions. To demonstrate the usages of OmiczViz, we analyzed the gene expression data from cell lines treated with chloroquine and ruxolitinib, the drug-target protein networks of 48 anti-coronavirus drugs and drugs bound with ACE2, and the profiles of immune cell infiltration between different COVID-19 patient groups. Our research shows that chloroquine had a regulatory role of the immune response in renal cell line but not in lung cell line. The anti-coronavirus drug-target network analysis suggested that antihistamine of promethaziney and dietary supplement of Zinc might be beneficial when used jointly with antiviral drugs. The immune infiltration analysis indicated that both the COVID-19 patients admitted to the ICU and the elderly with infection showed immune exhaustion status, yet with different molecular mechanisms. The interactive graphic interface of OmiczViz also makes it easier to analyze newly discovered and user-uploaded data, leading to an in-depth understanding of existing findings and an expansion of existing knowledge of SARS-CoV-2. Collectively, OmicsViz is web program that promotes the research on medical agents against SARS-CoV-2 and supports the evaluation of the latest research findings.
Molecular model of a sensor of two-component signaling system
Authors: Ryzhykau Yury L. , Orekhov Philipp S. , Rulev Maksim I. , Vlasov Alexey V. , Melnikov Igor A. , Volkov Dmytro A. , Nikolaev Mikhail Yu. , Zabelskii Dmitrii V. , Murugova Tatiana N. , Chupin Vladimir V. , Rogachev Andrey V. , Gruzinov Andrey Yu. , Svergun Dmitri I. , Brennich Martha E. , Gushchin Ivan Yu. , Soler-Lopez Montserrat , Bothe Arne , Büldt Georg , Leonard Gordon , Engelhard Martin , Kuklin Alexander I. , Gordeliy Valentin I. 
Published: May 2021

AbstractTwo-component systems (TCS) are widespread signaling systems present in all domains of life. TCS typically consist of a signal receptor/transducer and a response regulator. The receptors (histidine kinases, chemoreceptors and photoreceptors) are often embedded in the membrane and have a similar modular structure. Chemoreceptors were shown to function in highly ordered arrays, with trimers of dimers being the smallest functional unit. However, much less is known about photoreceptors. Here, we use small-angle scattering (SAS) to show that detergent-solubilized sensory rhodopsin II in complex with its cognate transducer forms dimers at low salt concentration, which associate into trimers of dimers at higher buffer molarities. We then fit an atomistic model of the whole complex into the SAS data. The obtained results suggest that the trimer of dimers is "tripod"-shaped and that the contacts between the dimers occur only through their cytoplasmic regions, whereas the transmembrane regions remain unconnected.
Iron supplementation regulates the progression of high fat diet induced obesity and hepatic steatosis via mitochondrial signaling pathways
Authors: Kitamura Naho , Yokoyama Yoko , Taoka Hiroki , Nagano Utana , Hosoda Shotaro , Taworntawat Tanon , Nakamura Anna , Ogawa Yoko , Tsubota Kazuo , Watanabe Mitsuhiro 
Published: May 2021

AbstractDisruption of iron metabolism is closely related to metabolic diseases. Iron deficiency is frequently associated with obesity and hepatic steatosis. However, the effects of iron supplementation on obesity and energy metabolism remain unclear. Here we show that a high-fat diet supplemented with iron reduces body weight gain and hepatic lipid accumulation in mice. Iron supplementation was found to reduce mitochondrial morphological abnormalities and upregulate gene transcription involved in mitochondrial function and beta oxidation in the liver and skeletal muscle. In both these tissues, iron supplementation increased the expression of genes involved in heme or iron–sulfur (Fe–S) cluster synthesis. Heme and Fe–S cluster, which are iron prosthetic groups contained in electron transport chain complex subunits, are essential for mitochondrial respiration. The findings of this study demonstrated that iron regulates mitochondrial signaling pathways—gene transcription of mitochondrial component molecules synthesis and their energy metabolism. Overall, the study elucidates the molecular basis underlying the relationship between iron supplementation and obesity and hepatic steatosis progression, and the role of iron as a signaling molecule.
Ethoxyquin is neuroprotective and partially prevents somatic and autonomic neuropathy in db/db mouse model of type 2 diabetes
Authors: Liu Ying , Sun Yuan , Ewaleifoh Osefame , Wei Josh , Mi Ruifa , Zhu Jing , Hoke Ahmet , Polydefkis Michael 
Published: May 2021

AbstractEthoxyquin (EQ), a quinolone-based antioxidant, has demonstrated neuroprotective properties against several neurotoxic drugs in a phenotypic screening and is shown to protect axons in animal models of chemotherapy-induced peripheral neuropathy. We assessed the effects of EQ on peripheral nerve function in the db/db mouse model of type II diabetes. After a 7 week treatment period, 12-week-old db/db-vehicle, db/+ -vehicle and db/db-EQ treated animals were evaluated by nerve conduction, paw withdrawal against a hotplate, and fiber density in hindlimb footpads. We found that the EQ group had shorter paw withdrawal latency compared to vehicle db/db group. The EQ group scored higher in nerve conduction studies, compared to vehicle-treated db/db group. Morphology studies yielded similar results. To investigate the potential role of mitochondrial DNA (mtDNA) deletions in the observed effects of EQ, we measured total mtDNA deletion burden in the distal sciatic nerve. We observed an increase in total mtDNA deletion burden in vehicle-treated db/db mice compared to db/+ mice that was partially prevented in db/db-EQ treated animals. These results suggest that EQ treatment may exert a neuroprotective effect in diabetic neuropathy. The prevention of diabetes-induced mtDNA deletions may be a potential mechanism of the neuroprotective effects of EQ in diabetic neuropathy.
Changes in taxonomic and functional diversity of plants in a chronosequence of Eucalyptus grandis plantations
Authors: Pairo Pamela E. , Rodriguez Estela E. , Bellocq M. Isabel , Aceñolaza Pablo G. 
Published: May 2021

AbstractTree plantations have become one of the fastest-growing land uses and their impact on biodiversity was evaluated mainly at the taxonomic level. The aim of this study was to analyze environmental changes after theEucalyptusplantation in an area originally covered by natural grasslands, taking into account the alpha and beta (taxonomic and functional) diversity of plant communities. We selected nine plantation ages, along a 12 years chronosequence, with three replicates per age and three protected grasslands as the original situation. At each replicate, we established three plots to measure plant species cover, diversity and environmental variables. Results showed that species richness, and all diversity indices, significantly declined with increasing plantation age. Canopy cover, soil pH, and leaf litter were the environmental drivers that drove the decrease in taxonomic and functional diversity of plants through the forest chronosequence. Based on the path analyses results, canopy cover had an indirect effect on plant functional diversity, mediated by leaf litter depth, soil pH, and plant species richness. The high dispersal potential, annual, barochorous, and zoochorous plant species were the functional traits more affected by the eucalypt plantations. We recommend two management practices: reducing forest densities to allow higher light input to the understory and, due to the fact that leaf litter was negatively associated with all diversity facets, we recommend reducing their accumulation or generate heterogeneity in its distribution to enhance biodiversity.
Rapid controlled release by photo-irradiation using morphological changes in micelles formed by amphiphilic lophine dimers
Authors: Akamatsu Masaaki , Kobayashi Kazuki , Iwase Hiroki , Sakaguchi Yoshifumi , Tanaka Risa , Sakai Kenichi , Sakai Hideki 
Published: May 2021

AbstractPhoto-induced rapid control of molecular assemblies, such as micelles and vesicles, enables effective and on-demand release of drugs or active components, with applications such as drug delivery systems (DDS) and cosmetics. Thus far, no attempts to optimize the responsiveness of photoresponsive molecular assemblies have been published. We previously reported photoresponsive surfactants bearing a lophine dimer moiety that exhibit fast photochromism in confined spaces, such as inside a molecular assembly. However, rapid control of the micelle structures and solubilization capacity have not yet been demonstrated. In the present work, photo-induced morphological changes in micelles were monitored using in-situ small-angle neutron scattering (SANS) and UV/Vis absorption spectroscopy. An amphiphilic lophine dimer (3TEG-LPD) formed elliptical micelles. These were rapidly elongated by ultraviolet light irradiation, which could be reversed by dark treatment, both within 60 s. For a solution of 3TEG-LPD micelles solubilizing calcein as a model drug molecule, fluorescence and SANS measurements indicated rapid release of the incorporated calcein into the bulk solvent under UV irradiation. Building on these results, we investigated rapid controlled release via hierarchical chemical processes: photoisomerization, morphological changes in the micelles, and drug release. This rapid controlled release system allows for effective and on-demand DDS.
COVID-19 awareness, knowledge and perception towards digital health in an urban multi-ethnic Asian population
Authors: Teo Cong Ling , Chee Miao Li , Koh Kai Hui , Tseng Rachel Marjorie Wei Wen , Majithia Shivani , Thakur Sahil , Gunasekeran Dinesh Visva , Nusinovici Simon , Sabanayagam Charumathi , Wong Tien Yin , Tham Yih-Chung , Cheng Ching-Yu 
Published: May 2021

AbstractThis study aimed to determine COVID-19-related awareness, knowledge, impact and preparedness among elderly Asians; and to evaluate their acceptance towards digital health services amidst the pandemic. 523 participants (177 Malays, 171 Indians, 175 Chinese) were recruited and underwent standardised phone interview during Singapore’s lockdown period (07 April till 01 June 2020). Multivariable logistic regression models were performed to evaluate the associations between demographic, socio-economic, lifestyle, and systemic factors, with COVID-19 awareness, knowledge, preparedness, well-being and digital health service acceptance. The average perception score on the seriousness of COVID-19 was 7.6 ± 2.4 (out of 10). 75.5% of participants were aware that COVID-19 carriers can be asymptomatic. Nearly all (≥ 90%) were aware of major prevention methods for COVID-19 (i.e. wearing of mask, social distancing). 66.2% felt prepared for the pandemic, and 86.8% felt confident with government’s handling and measures. 78.4% felt their daily routine was impacted. 98.1% reported no prior experience in using digital health services, but 52.2% felt these services would be helpful to reduce non-essential contact. 77.8% were uncomfortable with artificial intelligence software interpreting their medical results. In multivariable analyses, Chinese participants felt less prepared, and more likely felt impacted by COVID-19. Older and lower income participants were less likely to use digital health services. In conclusion, we observed a high level of awareness and knowledge on COVID-19. However, acceptance towards digital health service was low. These findings are valuable for examining the effectiveness of COVID-19 communication in Singapore, and the remaining gaps in digital health adoption among elderly.
Effects of long-term integrated agri-aquaculture on the soil fungal community structure and function in vegetable fields
Authors: Zheng Xianqing , Song Ke , Li Shuangxi , Zhang Hanlin , Bai Naling , Zhang Juanqin , Zhang Haiyun , Cai Shumei , Lv Weiguang , Cao Linkui 
Published: May 2021

AbstractThe diversity and community structure of soil fungi play an important role in crop production and ecosystem balance, especially in paddy-upland vegetable field systems. High-throughput sequencing was used to study changes in the soil fungal community structure and function in paddy-upland vegetable field systems. The results showed that compared with traditional planting, the diversity and community structure of soil fungi were changed by the combination of flooding and drought, the Shannon index increased by 11.07%, and the proportion of the dominant species, Mortierella, decreased by 22.74%. Soil available nitrogen, total phosphorus, available phosphorus, total nitrogen and organic matter played a leading role in the initial stage of the experiment, while the dominant factor changed to total potassium 3 years later and then to soil pH and water content 6 years later. FUNGuild analysis showed that the proportion of three independent trophic modes of soil fungi were increased by the combined flooded-drought model, and there were multiple interaction factors, For example, nutrient supply, pH and planting pattern. This study showed that soil fertility, crop yield and economic benefits were better than the traditional model after three years of planting and breeding. The longer the time, the better the effect.
Cell mechanical properties of human breast carcinoma cells depend on temperature
Authors: Aermes Christian , Hayn Alexander , Fischer Tony , Mierke Claudia Tanja 
Published: May 2021

AbstractThe knowledge of cell mechanics is required to understand cellular processes and functions, such as the movement of cells, and the development of tissue engineering in cancer therapy. Cell mechanical properties depend on a variety of factors, such as cellular environments, and may also rely on external factors, such as the ambient temperature. The impact of temperature on cell mechanics is not clearly understood. To explore the effect of temperature on cell mechanics, we employed magnetic tweezers to apply a force of 1 nN to 4.5 µm superparamagnetic beads. The beads were coated with fibronectin and coupled to human epithelial breast cancer cells, in particular MCF-7 and MDA-MB-231 cells. Cells were measured in a temperature range between 25 and 45 °C. The creep response of both cell types followed a weak power law. At all temperatures, the MDA-MB-231 cells were pronouncedly softer compared to the MCF-7 cells, whereas their fluidity was increased. However, with increasing temperature, the cells became significantly softer and more fluid. Since mechanical properties are manifested in the cell’s cytoskeletal structure and the paramagnetic beads are coupled through cell surface receptors linked to cytoskeletal structures, such as actin and myosin filaments as well as microtubules, the cells were probed with pharmacological drugs impacting the actin filament polymerization, such as Latrunculin A, the myosin filaments, such as Blebbistatin, and the microtubules, such as Demecolcine, during the magnetic tweezer measurements in the specific temperature range. Irrespective of pharmacological interventions, the creep response of cells followed a weak power law at all temperatures. Inhibition of the actin polymerization resulted in increased softness in both cell types and decreased fluidity exclusively in MDA-MB-231 cells. Blebbistatin had an effect on the compliance of MDA-MB-231 cells at lower temperatures, which was minor on the compliance MCF-7 cells. Microtubule inhibition affected the fluidity of MCF-7 cells but did not have a significant effect on the compliance of MCF-7 and MDA-MB-231 cells. In summary, with increasing temperature, the cells became significant softer with specific differences between the investigated drugs and cell lines.
Maternal mental health and gestational weight gain in a Brazilian Cohort
Authors: Farias Dayana Rodrigues , Carrilho Thais Rangel Bousquet , Freitas-Costa Nathalia C. , Batalha Mônica Araújo , Gonzalez Mylena , Kac Gilberto 
Published: May 2021

AbstractDepression and anxiety are common during pregnancy, but little is known about the influence of these disorders on gestational weight gain (GWG). Data from a prospective cohort of pregnant women followed in a public healthcare center in Rio de Janeiro, Brazil, were used to evaluate the association of depression, anxiety, and suicide risk with GWG. GWG was evaluated at 5–13, 20–26, 30–36, and 37–42 weeks, and GWG adequacy was determined. Statistical analyses included linear mixed-effect models and Poisson regression. We evaluated 206 women, in which 15% (n = 31) presented major depressive disorder, 19.4% (n = 34) suicide risk and 10% (n = 21) generalized anxiety disorder at baseline. Women with depression at the first trimester, persistent depressive symptoms, and anxiety symptoms at the second trimester presented significantly lower rates of GWG per week compared to those without depression or anxiety, respectively. Persistent depressive symptoms represented a 2.40 (95% CI 1.20; 4.81; p = 0.013) increase in the risk of insufficient GWG. There was no significant association between generalized anxiety disorder or suicide risk with GWG. The presence of depression, depressive symptoms, and anxiety during pregnancy were associated with lower GWG rates. Persistent depressive symptoms during pregnancy were directly associated with insufficient GWG.
Health monitoring in birds using bio-loggers and whole blood transcriptomics
Authors: Jax Elinor , Müller Inge , Börno Stefan , Borlinghaus Hanna , Eriksson Gustaw , Fricke Evi , Timmermann Bernd , Pendl Helene , Fiedler Wolfgang , Klein Karsten , Schreiber Falk , Wikelski Martin , Magor Katharine E. , Kraus Robert H. S. 
Published: May 2021

AbstractMonitoring and early detection of emerging infectious diseases in wild animals is of crucial global importance, yet reliable ways to measure immune status and responses are lacking for animals in the wild. Here we assess the usefulness of bio-loggers for detecting disease outbreaks in free-living birds and confirm detailed responses using leukocyte composition and large-scale transcriptomics. We simulated natural infections by viral and bacterial pathogens in captive mallards (Anas platyrhynchos), an important natural vector for avian influenza virus. We show that body temperature, heart rate and leukocyte composition change reliably during an acute phase immune response. Using genome-wide gene expression profiling of whole blood across time points we confirm that immunostimulants activate pathogen-specific gene regulatory networks. By reporting immune response related changes in physiological and behavioural traits that can be studied in free-ranging populations, we provide baseline information with importance to the global monitoring of zoonotic diseases.
The roles and prognostic significance of ABI1-TSV-11 expression in patients with left-sided colorectal cancer
Authors: Zhang Yu , Zhong Zhaohui , Li Mei , Chen Jingyi , Lin Tingru , Sun Jie , Wang Di , Mu Qing , Su Huiting , Wu Na , Liu Aiyu , Yu Yimeng , Zhang Menglei , Liu Yulan , Guo Jingzhu , Yu Weidong 
Published: May 2021

AbstractAbnormally expressed and/or phosphorylated Abelson interactor 1 (ABI1) participates in the metastasis and progression of colorectal cancer (CRC). ABI1 presents as at least 12 transcript variants (TSVs) by mRNA alternative splicing, but it is unknown which of them is involved in CRC metastasis and prognosis. Here, we firstly identified ABI1-TSV-11 as a key TSV affecting the metastasis and prognosis of left-sided colorectal cancer (LsCC) and its elevated expression is related to lymph node metastasis and shorter overall survival (OS) in LsCC by analyzing data from The Cancer Genome Atlas and TSVdb. Secondly, ABI1-TSV-11 overexpression promoted LoVo and SW480 cells adhesion and migration in vitro, and accelerated LoVo and SW480 cells lung metastasis in vivo. Finally, mechanism investigations revealed that ABI1-isoform-11 interacted with epidermal growth factor receptor pathway substrate 8 (ESP8) and regulated actin dynamics to affect LoVo and SW480 cells biological behaviors. Taken together, our data demonstrated that ABI1-TSV-11 plays an oncogenic role in LsCC, it is an independent risk factor of prognosis and may be a potential molecular marker and therapeutic target in LsCC.
Evaluation of LDL goal achievement in statin consumption, south east of Iran
Authors: Aghasizadeh Malihe , Bizhaem Saeede Khosravi , Baniasadi Mahin , Khazdair Mohammad Reza , Kazemi Toba 
Published: May 2021

AbstractLipid goal achievement and statin consumption were estimated at extreme/very-high/high/moderate and low cardiovascular risk categories. In the cross-sectional study, 585 patients treated with statin therapy referring to the heart clinic of Birjand were recruited. Patients were classified and examined LDL-C values and the proportion reaching targets according to the American Association of Clinical Endocrinologists guideline. Three patterns of statin use (high/moderate/low-intensity statin therapy) in all patients were examined and attainments of LDL-C goal in cardiovascular risk groups have been demonstrated. Over half the populations (57.6%) were in the very-high CVD risk group. The results showed that the proportion of patients meeting total LDL-C goal values according to the guidelines was 43.4%. The frequency of patient had achievement LDL goal lower in high-intensity pattern (N = 13, 2.3%), compared with moderate (N = 496, 86.1%) and low-intensity patterns (N = 67, 11.6%). In general, LDL-C goal achievement was greatest with moderate-intensity statin use. LDL-C reduction after statin consumption was estimated about one-third of the studied population. It seems likely that the achievement of a therapeutic target for serum lipids such as LDL-C improved is far more cost-effective and would be able to reach the target LDL as well changing the type and intensity of statins.
Interfacial properties of [Pt/Co/Pt] trilayers probed through magnetometry
Authors: Won Young Chan , Lim Sang Ho 
Published: May 2021

AbstractThe magnetic and interface properties of [Pt/Co/Pt] were investigated. First, the magnetic properties were determined from the magnetic dead layer plots, in which the Co layer was considered as two distinct parts representing different magnetic properties. The two parts with low and high tCo ranges are close to and away from the top interface (Co/Pt), respectively. The part close to the top interface shows a smaller magnetization (M) value and nonlinear behavior. However, the other part shows a higher M value closer to the bulk value and a linear behavior. The nonlinear behavior of the M values of the low tCo range was converted to an impurity level using simple assumptions. The results showed the effect of the top Pt layer on the magnetic properties of the Co layer. The results clearly demonstrate that magnetometry could be utilized as a means to understand the interface quality of magnetic multilayer systems.