Miracle-dz/UniFAR-FTUs huggingface dataset:
Overview and New Insights Into the Diversity, Evolution, Role, and Regulation of Kisspeptins and Their Receptors in Teleost Fish

In the last two decades, kisspeptin (Kiss) has been identified as an important player in the regulation of reproduction and other physiological functions in vertebrates, including several fish species. To date, two ligands (Kiss1, Kiss2) and three kisspeptin receptors (Kissr1, Kissr2, Kissr3) have been identified in teleosts, likely due to whole-genome duplication and loss of genes that occurred early in teleost evolution. Recent results in zebrafish and medaka mutants have challenged the notion that the kisspeptin system is essential for reproduction in fish, in marked contrast to the situation in mammals. In this context, this review focuses on the role of kisspeptins at three levels of the reproductive, brain-pituitary-gonadal (BPG) axis in fish. In addition, this review compiled information on factors controlling the Kiss/Kissr system, such as photoperiod, temperature, nutritional status, sex steroids, neuropeptides, and others. In this article, we summarize the available information on the molecular diversity and evolution, tissue expression and neuroanatomical distribution, functional significance, signaling pathways, and gene regulation of Kiss and Kissr in teleost fishes. Of particular note are recent advances in understanding flatfish kisspeptin systems, which require further study to reveal their structural and functional diversity.
Soybean Leaf Proteomic Profile Influenced by Rhizobacteria Under Optimal and Salt Stress Conditions

Soil salinity is a major abiotic stressor inhibiting plant growth and development by affecting a range of physiological processes. Plant growth promoting rhizobacteria (PGPR) are considered a sustainable option for alleviation of stress and enhancement of plant growth, yet their mode of action is complex and largely unexplored. In this study, an untargeted proteomic approach provided insights into growth and stress response mechanisms elicited in soybean plants by Rhizobium sp. SL42 and Hydrogenophaga sp. SL48 and co-inoculated with Bradyrhizobium japonicum 532C. The plants were grown under optimal and salt-stressed conditions up to their mid-vegetative stage; shoot growth variables were increased in the bacteria-treated plants. Shotgun proteomics of soybean leaf tissue revealed that a number of proteins related to plant growth and stress tolerance were modulated in the bacterial inoculation treatments. Several key proteins involved in major metabolic pathways of photosynthesis, respiration, and photorespiration were upregulated. These include photosystem I psaK, Rubisco subunits, glyceraldehyde-3-phosphate dehydrogenase, succinate dehydrogenase, and glycine decarboxylase. Similarly, stress response proteins such as catalase and glutathione S-transferase (antioxidants), proline-rich precursor protein (osmolyte), and NADP-dependent malic enzyme (linked to ABA signaling) were increased under salt stress. The functions of proteins related to plant growth and stress adaptation led to an expanded understanding of plant-microbe interactions. These findings suggest that the PGPR strains regulated proteome expression in soybean leaves through multiple signaling pathways, thereby inducing salinity tolerance, and improving plant growth in the presence of this abiotic stress challenge. Data are available via ProteomeXchange with identifier PXD025596.
Genome-Wide Approaches to Unravel the Host Factors Involved in Chikungunya Virus Replication

Chikungunya virus (CHIKV), the causative agent of Chikungunya fever (CHIKVF) that is often characterized by fever, headache, rash, and arthralgia, is transmitted to humans by Aedes mosquito bites. Although the mortality rate associated with CHIKV infection is not very high, CHIKVF has been confirmed in more than 40 countries, not only in tropical but also in temperate areas. Therefore, CHIKV is a growing major threat to the public health of the world. However, a specific drug is not available for CHIKV infection. As demonstrated by many studies, the processes completing the replication of CHIKV are assisted by many host factors, whereas it has become clear that the host cell possesses some factors limiting the virus replication. This evidence will provide us with an important clue for the development of pharmacological treatment against CHIKVF. In this review, we briefly summarize cellular molecules participating in the CHIKV infection, particularly focusing on introducing recent genome-wide screen studies that enabled illuminating the virus-host interactions.
Effects of Different Nitrogen Forms and Competitive Treatments on the Growth and Antioxidant System of Wedelia trilobata and Wedelia chinensis Under High Nitrogen Concentrations

Nitrogen (N) is one of the essential nutrients for plant growth. Appropriate application of N can improve the N use efficiency (NUE) and significantly promote plants’ growth. However, under N toxic conditions, the relationship between the growth and antioxidant system of invasive plants under different N forms and competitive treatments is not fully understood. Therefore, in this study, the performance of invasive species Wedelia trilobata and its native species Wedelia chinensis was evaluated under two sets of N forms and ratios, namely, NH4+-N(AN)/NO3–-N(NN) = 2:1 and NH4+-N(AN)/NO3–-N(NN) = 1:2 along with two intraspecific and interspecific competitions under without N and high N level of 15 g N⋅m–2 year–1, respectively. Data regarding the growth indices, antioxidant enzyme activities, including peroxidase (POD) and catalase (CAT), malondialdehyde (MDA), and proline contents were determined. Results showed that for competitive treatments, growth status was better for interspecific competition than intraspecific competition. The plant biomass of W. trilobata was significantly higher than that of W. chinensis. N significantly promoted the plants’ growth in terms of leaf area and biomass yield, and the antioxidant enzyme activities were significantly increased under a high N treatment than that of the control. Among N forms/ratios, ammonium N (AN)/nitrate N (NN) = 2:1 significantly enhanced the enzyme activity, particularly in W. trilobata. Furthermore, for intraspecific competition, MDA contents of W. trilobata were significantly decreased compared to that of W. chinensis. In conclusion, our results showed that W. trilobata adapted well under competitive conditions through better growth and antioxidant defense system.
Perftoran ® Inhibits Hypoxia-Associated Resistance in Lung Cancer Cells to Carboplatin

Perftoran® (perfluorodecalin) is an oxygen carrier, and carboplatin is a common chemotherapy drug used worldwide for lung cancer treatment. Hypoxia is one of the factors that induce resistance of lung cancer cells to carboplatin. This study explored the role of Perftoran®, as an oxygen carrier, in lowering the resistance of lung cancer cells to carboplatin through suppression of hypoxia pathway mediators. The effect of Perftoran® on the resistance of human lung cancer A549 cells to carboplatin was investigated through the evaluation of cytotoxicity by MTT, cell death mode by dual DNA staining, DNA damage by comet assay, DNA platination (DNA/carboplatin adducts) by atomic absorption spectroscopy, hypoxia degree by pimonidazole, HIF-1α/HIF-2α concentrations by ELISA, expression of miRNAs (hypoxamiRs miR-210, miR-21, and miR-181a) by qRT-PCR, and the content of drug resistance transporter MRP-2 by immunocytochemical staining. Results indicated that compared to carboplatin, Perftoran®/carboplatin decreased cell resistance to carboplatin by potentiating its cytotoxicity using only 45% of carboplatin IC50 and inducing apoptosis. Perftoran® induced DNA platination and DNA damage index in cells compared to carboplatin alone. Moreover, compared to treatment with carboplatin alone, co-treatment of cells with Perftoran® and carboplatin inhibited cellular pimonidazole hypoxia adducts, diminished HIF-1α/HIF-2α concentrations, suppressed hypoxamiR expression, and decreased MRP-2. In conclusion, Perftoran® inhibited resistance of lung cancer cells to carboplatin through the inhibition of both hypoxia pathway mediators and the drug resistance transporter MRP-2 and through the induction of DNA/carboplatin adduct formation.
A Noninvasive BCI System for 2D Cursor Control Using a Spectral-Temporal Long Short-Term Memory Network

Two-dimensional cursor control is an important and challenging problem in the field of electroencephalography (EEG)-based brain computer interfaces (BCIs) applications. However, most BCIs based on categorical outputs are incapable of generating accurate and smooth control trajectories. In this article, a novel EEG decoding framework based on a spectral-temporal long short-term memory (stLSTM) network is proposed to generate control signals in the horizontal and vertical directions for accurate cursor control. Precisely, the spectral information is used to decode the subject's motor imagery intention, and the error-related P300 information is used to detect a deviation in the movement trajectory. The concatenated spectral and temporal features are fed into the stLSTM network and mapped to the velocities in vertical and horizontal directions of the 2D cursor under the velocity-constrained (VC) strategy, which enables the decoding network to fit the velocity in the imaginary direction and simultaneously suppress the velocity in the non-imaginary direction. This proposed framework was validated on a public real BCI control dataset. Results show that compared with the state-of-the-art method, the RMSE of the proposed method in the non-imaginary directions on the testing sets of 2D control tasks is reduced by an average of 63.45%. Besides, the visualization of the actual trajectories distribution of the cursor also demonstrates that the decoupling of velocity is capable of yielding accurate cursor control in complex path tracking tasks and significantly improves the control accuracy.
Effects of Ramadan and Non-ramadan Intermittent Fasting on Gut Microbiome

Background In recent years, intermittent fasting (IF) has gained popularity in the health and wellness in the world. There are numerous types of IF, all of which involve fasting periods that last longer than an overnight fast and involve limited meal time-windows, with or without calorie restriction. The objective of this review is to summarize the current evidence for the effects of Ramadan and non-Ramadan IF on gut microbiome. Methods We explored PubMed, Scopus, Web of Science, and Google Scholar according to the PRISMA criteria (Preferred Reporting Items for Systematic Reviews and Meta-Analysis). Animal and human studies were screened and reviewed separately by two researchers. Results Twenty-eight studies were selected after screening. Some of the studies were performed on animal models and some on humans. The results of these studies indicate a significant shift in the gut microbiota, especially an increase in the abundance of Lactobacillus and Bifidobacteria following fasting diets. The results of some studies also showed an increase in the bacterial diversity, decrease inflammation and increased production of some metabolites such as short-chain fatty acids (SCFAs) in individuals or samples under fasting diets. Moreover, Ramadan fasting, as a kind of IF, improves health parameters through positive effects on some bacterial strains such as Akkermansia muciniphila and Bacteroide. However, some studies have reported adverse effects of fasting diets on the structure of the microbiome. Conclusion In general, most studies have seen favorable results following adherence from the fasting diets on the intestinal microbiome. However, because more studies have been done on animal models, more human studies are needed to prove the results.
Synthetic Benzimidazole Opioids: The Emerging Health Challenge for European Drug Users

The new psychoactive substances (NPS) phenomenon was initially observed as a response of the illicit market to the international ban on classic drugs of abuse, with the peculiarity of a continuous release of new uncontrolled compounds exerting psychotropic effects which in some cases resulted more potent or longer lasting than those of classic abused substances (1). To date, more than 1,100 NPS have been characterized, mainly new synthetic cathinones and new synthetic cannabinoids, even if the most recent emerging trend has been that of new synthetic opioids (NSOs) (2–4). In this concern, North America has experienced an unprecedented “opioid crisis” with a notable increase in the rate of opioid-related acute intoxications and fatalities during the last decade. Differently from the past, the new wave of opioid consumption is more related to diversion and misuse of prescription opioids and the emergence of new NSOs characterized by extreme pharmacological potency and toxicity (2). As a result of this opioid epidemic, in 2017, NSOs were involved in 59.8% of opioid-related overdose fatalities in the USA. This trend was confirmed also in 2019, when the synthetic opioid-related fatalities increased in 20 states, ranging between 11.2% (Kentucky) and 95.5% (Colorado) of additional cases (5). With the broadening of the phenomenon toward Europe, in 2020, two-thirds of the global opioid-related fatal intoxications were attributed to NSO misuse, with the healthy-years life expectancy of opioid abusers decreased to 70% (6).
Molecular Science of Lubricant Additives

This review aims at introducing an engineering field of lubrication to researchers who are not familiar with tribology, thereby emphasizing the importance of lubricant chemistry in applied science. It provides initial guidance regarding additive chemistry in lubrication systems for researchers with different backgrounds. The readers will be introduced to molecular sciences underlying lubrication engineering. Currently, lubricant chemistry, especially “additive technology”, looks like a very complicated field. It seems that scientific information is not always shared by researchers. The cause of this is that lubrication engineering is based on empirical methods and focuses on market requirements. In this regard, engineering knowhow is held by individuals and is not being disclosed to scientific communities. Under these circumstances, a bird’s-eye view of lubricant chemistry in scientific words is necessary. The novelty of this review is to concisely explain the whole picture of additive technology in chemical terms. The roles and functions of additives as the leading actors in lubrication systems are highlighted within the scope of molecular science. First, I give an overview of the fundamental lubrication model and the role of lubricants in machine operations. The existing additives are categorized by the role and work mechanism in lubrication system. Examples of additives are shown with representative molecular structure. The second half of this review explains the scientific background of the lubrication engineering. It includes interactions of different components in lubrication systems. Finally, this review predicts the technical trends in lubricant chemistry and requirements in molecular science. This review does not aim to be a comprehensive chart or present manufacturing knowhow in lubrication engineering. References were carefully selected and cited to extract “the most common opinion” in lubricant chemistry and therefore many engineering articles were omitted for conciseness.
A Network-Based Approach to Investigate the Neuroprotective Effects and Mechanisms of Action of Huangqi-Chuanxiong and Sanleng-Ezhu Herb Pairs in the Treatment of Cerebral Ischemic Stroke

Objective: We aimed to investigate the effect and mechanisms of action of two drug pairs [Huangqi-Chuanxiong and Sanleng-Ezhu Herb (HCSE)] on the treatment of ischemic stroke. Materials and methods: We mined the current literature related to ischemic stroke and formulated a new formulation of Chinese herbs. Then, we identified the main candidate target genes of the new formulation by network pharmacology. Next, we performed enrichment analysis of the target genes to identify the potential mechanism of action of the new formulation in the treatment of ischemic stroke. Next, we experimentally validated the mechanism of action of the new formulation against ischemic stroke. Infarct volume and neurological deficits were evaluated by 2,3,5-triphenyltetrazolium (TTC) staining and Longa’s score, respectively. The predicted pathways of signal-related proteins were detected by western blotting. Results: We mined the current literature and identified a new formulation of Chinese herbs for the treatment of ischemic stroke. The formulation included Huangqi, Chuanxiong, Sanleng and Ezhu. Next, we used network pharmacological analysis to identify 23 active compounds and 327 target genes for the new formulation. The key target genes were MAPK3, MAPK1, HSP90AA1, STAT3, PIK3R1, PIK3CA and AKT1. Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis revealed significant enrichment of the PI3K/AKT and MAPK/ERK signaling pathways. By performing experiments, we found that the new formulation reduced the infarct volume of middle cerebral artery occlusion (MCAO) induced mice and activated the PI3K/AKT and MAPK/ERK signaling pathways. These findings confirmed that the new formulation has a significant protective effect against ischemic stroke injury by activating the PI3K/AKT and MAPK/ERK signaling pathways. Conclusion: We identified a new treatment formulation for ischemic stroke by data mining and network pharmacological target prediction. The beneficial effects of the new formulation act by regulating multiple target genes and pathways. The mechanism of action of the new formulation may be related to the AKT and ERK signaling pathways. Our findings provide a theoretical basis for the effects of the new formulation on ischemic stroke injury.
PPARγ Gene Polymorphisms, Metabolic Disorders, and Coronary Artery Disease

Being activated by endogenous and exogenous ligands, nuclear receptor peroxisome proliferator-activated receptor gamma (PPARγ) enhances insulin sensitivity, promotes adipocyte differentiation, stimulates adipogenesis, and has the properties of anti-atherosclerosis, anti-inflammation, and anti-oxidation. The Human PPARγ gene (PPARG) contains thousands of polymorphic loci, among them two polymorphisms (rs10865710 and rs7649970) in the promoter region and two polymorphisms (rs1801282 and rs3856806) in the exonic region were widely reported to be significantly associated with coronary artery disease (CAD). Mechanistically, PPARG polymorphisms lead to abnormal expression of PPARG gene and/or dysfunction of PPARγ protein, causing metabolic disorders such as hypercholesterolemia and hypertriglyceridemia, and thereby increasing susceptibility to CAD.
Phytohormonal Regulation Through Protein S-Nitrosylation Under Stress

The liaison between Nitric oxide (NO) and phytohormones regulates a myriad of physiological processes at the cellular level. The interaction between NO and phytohormones is mainly influenced by NO-mediated post-translational modifications (PTMs) under basal as well as induced conditions. Protein S-nitrosylation is the most prominent and widely studied PTM among others. It is the selective but reversible redox-based covalent addition of a NO moiety to the sulfhydryl group of cysteine (Cys) molecule(s) on a target protein to form S-nitrosothiols. This process may involve either direct S-nitrosylation or indirect S-nitrosylation followed by transfer of NO group from one thiol to another (transnitrosylation). During S-nitrosylation, NO can directly target Cys residue (s) of key genes involved in hormone signaling thereby regulating their function. The phytohormones regulated by NO in this manner includes abscisic acid, auxin, gibberellic acid, cytokinin, ethylene, salicylic acid, jasmonic acid, brassinosteroid, and strigolactone during various metabolic and physiological conditions and environmental stress responses. S-nitrosylation of key proteins involved in the phytohormonal network occurs during their synthesis, degradation, or signaling roles depending upon the response required to maintain cellular homeostasis. This review presents the interaction between NO and phytohormones and the role of the canonical NO-mediated post-translational modification particularly, S-nitrosylation of key proteins involved in the phytohormonal networks under biotic and abiotic stresses.
Effect of Grain Structure on the Failure Mechanism of Cu/Cu3Sn Investigated Via Molecular Dynamic Simulations

The grain structure has a great influence on the mechanical reliability of miniaturized interconnect circuits. Under the working conditions, Cu3Sn will be the main intermetallic compound that forms during electromigration and the thermal ageing process, which can easily induce cracks between Cu3Sn and the copper pad. This paper investigated the effect of the Cu grain structure on the Cu3Sn/Cu interface reliability via molecular dynamic simulations. Single-crystal Cu, twin-crystal Cu, and polycrystalline Cu models were implemented to form the interface structure, and uniaxial tension simulations were performed at strain rates of 0.01, 0.1, and 0.5% ps−1 to evaluate the interfacial strength and interface failure mechanism. Results show that the polycrystalline Cu models always exhibits a lower degree of stress and shows a great ductile character. The existence of twin grain boundaries makes Cu layer more stable, and their failure processes are dominated by stair-rod type dislocations with a Burgers vector of 1/6 [110] instead of Shockley dislocations with a Burgers vector of 1/6 [112], which induce their interface models fail in Cu3Sn layer near the interface. The strain rate dependence mechanical character of both interface and grains would be the main reason of phenomenon for the difference failure character affected by grain structure and strain rate.