Combinatorial Chemistry & High Throughput Screening - Volume 26, Issue 10, 2023

One of the most dynamic approaches in biotechnology is reverse vaccinology, which plays a huge role in today's developing vaccines. It has the capability of exploring and identifying the most potent vaccine candidate in a limited period of time. The first successful novel approach of reverse vaccinology was observed in Neisseria meningitidis serogroup B, which has revolutionised the whole field of computational biology. In this review, we have summarized the application of reverse vaccinology for different infectious diseases, discussed epitope prediction and various available bioinformatic tools, and explored the advantages, limitations and necessary elements of this approach. Some of the modifications in the reverse vaccinology approach, like pan-genome and comparative reverse vaccinology, are also outlined. Vaccines for illnesses like AIDS and hepatitis C have not yet been developed. Computer Aided Reverse vaccinology has the potential to be a game-changer in this area. The use of computational tools, pipelines and advanced soft-computing methods, such as artificial intelligence and deep learning, and exploitation of available omics data in integration have paved the way for speedy and effective vaccine designing. Is reverse vaccinology a viable option for developing vaccines against such infections, or is it a myth? Vaccine development gained momentum after the spread of various infections, resulting in numerous deaths; these vaccines are developed using the traditional technique, which includes inactivated microorganisms. As a result, reverse vaccinology may be a far superior technique for creating an effective vaccine.

Background: Pyrethrum tatsienense (Bureau amp; Franch.) Ling ex C. Shih (PTLCS) belongs to the family Compositae, which is a perennial medicinal plant mainly distributed in the Qinghai-Tibet Plateau of China. This review provides a comprehensive summary of the ethnopharmacology, phytochemistry, and pharmacology of PTLCS. This review offers valuable references and guidance for researching PTLCS in depth. Methods: The related references of PTLCS were retrieved from an online database, such as Web of Science, Google Scholar, SciFinder, PubMed, SpringLink, Elsevier, Willy, CNKI, and so on. Results: PTLCS is widely reported for treating headaches, head injuries, traumatic injuries, anabrosis, impetigo, hepatitis, and other diseases in the medical field. Phytochemical research revealed that this plant contained flavonoid aglycones, flavonoid glycosides, xanthones, triterpenoids, coumarins, polyacetylenes, volatile oils, and other compounds. Meanwhile, PTLCS exhibited extensive pharmacological activities including anti-cardiac ischemia, anti-hypoxia, hepatoprotective, anti- inflammatory and analgesic, and antioxidant activities. Conclusions: PTLCS is widely used as a Tibetan medicine, which has a variety of chemicals with diverse bioactivities. Therefore, further studies are necessary to perform on the PTLCS to assay biological activities, discover their bioactive constituents, and reveal pharmacological mechanisms. This review may supply an important theoretical basis and valuable reference for in-depth research and exploitations of PTLCS.

Background: Non-small cell lung cancer (NSCLC) is associated with high morbidity and mortality. Dysregulation of lncRNAs leads to NSCLC progression. Objective: This study aims to explore the regulatory mechanism of lncRNA LINC01234 in NSCLC. Materials and Methods: LINC01234 expression in NSCLC cells was determined. Cell proliferation was detected using CCK-8, colony formation, and EDU assays after transfection of siRNA LINC01234 into H1299 cells and transfection of pcDNA3.1-LINC01234 into H1975 cells. Subcellular localization of LINC01234 was predicted and the binding relations between LINC01234 and miR-433-3p as well as miR-433-3p and GRB2 were verified. The expression levels of miR-433-3p and GRB2 in NSCLC cells were determined. Joint experiments of miR-433-3p inhibitor + si- LINC01234-1 or oe-GRB2 + si-LINC01234-1 were conducted to verify the role of miR-433-3p and GRB2 in NSCLC cell malignant proliferation. Results: LINC01234 was abundantly expressed in NSCLC cells. LINC01234 silencing reduced NSCLC cell proliferation while LINC01234 overexpression enhanced cell proliferation. LINC01234 competitively bound to miR-433-3p and miR-433-3p directly targeted GRB2. miR- 433-3p knockdown or GRB2 overexpression counteracted the repressive effect of LINC01234 silencing on NSCLC cell malignant proliferation. Conclusion: LINC01234 competitively bound to miR-433-3p and promoted GRB2 transcription to augment NSCLC cell malignant proliferation.

Objective: Myocardial ischemia-reperfusion (IR) injury is an unresolved medical problem with a high incidence. This study aims to analyze the novel molecular mechanism by which curcuminoids protect cardiomyocytes from IR injury. Methods: A IR model In Vitro of rat cardiomyocytes H9c2 cells was structured. Curcumin (CUR) and its derivatives, demethoxycurcumin (DMC) and bisdemethoxycurcumin (BDMC) treated H9c2 cells, and reactive oxygen species (ROS) production, viability, apoptosis, mitochondrial membrane potential (MMP), oxidative stress and total RNA m⁶A levels of H9c2 cells were detected by using DCFH-DA stain, CCK-8, flow cytometry, Hoechst 33342 stain, TMRM stain, ELISA and RTqPCR. FB23 was used in rescue experiments. Results: IR significantly increased ROS production, decreased cell viability, and induced apoptosis, MMP loss, and oxidative stress. In addition, IR induced an increase in total RNA m⁶A levels and changes in m⁶A-related proteins expression. CUR (10 μM), DMC (10 μM) and BDMC (10 μM), significantly inhibited IR-induced ROS production, apoptosis, MMP loss and oxidative stress, and enhanced cell viability. Furthermore, CUR, DMC and BDMC altered the expression pattern of m⁶A-related proteins and reduced IR-induced total m⁶A levels. There was no significant difference in the effects of the three. CUR's protective effect was partially reduced by FB23. Conclusion: Curcuminoids attenuate myocardial IR injury by regulating total RNA m⁶A levels.

Background: Traditional Chinese medicine formula (TCMF) Run-zao-zhi-yang capsule (RZZY) is commonly used in treating itch in China. However, there are few studies on its mechanisms. In this study, we revealed the mechanisms and molecular targets of RZZY for itch by network pharmacology, molecular docking, and in vitro experiments. Methods: The network pharmacology consisted of active ingredient collection, target acquisition, enrichment analysis, biological process analysis, and network construction. Molecular docking was carried out using molegro virtual docker (MVD) software. LPS-induced RAW 264.7 cells were used to evaluate the in vitro anti-inflammatory activity. Results: We collected 483 high-confidence targets that interacted with 16 active compounds of RZZY, including 121 common genes related to itch. 43 important targets and 20 important pathways were identified according to the network and system analysis. Target-pathway network function analysis suggested that RZZY is treated for itch by multiple ways in immune regulation, hormone adjustment, anti-inflammation, and anti-oxidation. Molecular docking results demonstrated that daidzein and formononetin could be closely combined with 4 proteins. In vitro experiments displayed that RZZY, sophocarpine, catalpol, emodin, and daidzein had suppressive effects against TNF-α, IL-1β, or IL-6 production in LPS-induced RAW 264.7 cells. Interestingly, the result of network pharmacology revealed that RZZY might be more suitable for senile pruritus, consistent with the bibliometric analysis of RZZY’s clinical indications. Conclusion: This study illustrated the potential mechanisms and molecular targets of RZZY for itch, which may contribute to the proper use of RZZY in clinical practice.

Background: Abnormal epigenetic alterations influenced by external factors and affecting DNA expression contribute to the development of asthma. However, the role of the nasal epithelium in airway inflammation remains unknown. Objective: The objective of this study is to identify novel DNA promoter hypermethylation, which suppresses mRNA expression in nasal epithelial of asthma. Methods: Microarray datasets were downloaded from the Gene Expression Omnibus (GEO) database. Gene expression and DNA promoter methylation sites in key correlated modules between asthma and normal were identified by weighted gene co-expression network analysis. Gene Oncology and Kyoto Encyclopedia of Genes and Genomes were conducted to analyse the function of genes. Further validation was performed in human BEAS-2B cells challenged by IL-4 or IL-13. Results: Lightcyan, lightgreen, midnightblue, cyan and tan modules in the mRNA expression dataset showed a close relationship with asthma, in which genes were enriched in TNF, IL-17, ErbB, MAPK and Estrogen signalling pathways. Blue and turquoise modules in the methylation profiling dataset were associated with asthma. Forty nine lowly expressed genes were identified to be correlated with aberrant DNA hypermethylation of promoters. Among these genes, the mRNA levels of BCL10, GADD45B, LSR and SQSTM1 were downregulated in BEAS-2B cells challenged with IL-4 or IL-13. Conclusion: Four potential genes in the nasal epithelium, by hypermethylating their own DNA promoter, might mediate the inflammatory response in the pathogenesis of asthma. Analyzing epigenomic data by integrated bioinformatics helps to understand the role of DNA methylation in asthma, with the goal of providing new perspectives for diagnosis and therapy.

Background: Phytomedicines are proven to treat various chronic diseases as these compounds are cost-effective with few or no side effects. Elucidating the ameliorative effect of phytomedicine on cerebral ischemia may be a potent alternative therapy. Citronellol, a monoterpene alcohol, is one such phyto compound present in the essential oils of Cymbopogon nardus and Pelargonium geraniums and has immense pharmacological properties such as antihyperalgesic, anticonvulsant and antinociceptive. Objective: In the present work, the anti-ischemic effect of citronellol in both cellular and animal models of stroke was analyzed. Methods: Citronellol-pretreated SH-SY5Y cells were subjected to oxygen-glucose deprivation and reperfusion. The cells were assessed for cell viability and LDH quantification. Inflammatory cytokines were estimated in the cell lysate of citronellol pretreated OGD-R induced cells. Healthy young SD rats were pretreated with citronellol and induced with MCAO-R. The control group was comprised of sham-operated rats treated with saline. Group II was comprised of MCAO/R-induced untreated rats. Groups III and IV rats were previously treated with 10 mg/kg and 20 mg/kg citronellol, respectively, for 7 consecutive days and induced with MCAO/R. Brain edema was analyzed by quantifying the water content and the percentage of infarct was assessed using the TTC staining technique. Acetylcholinesterase activity and neurological scoring were performed to assess the neuroprotective activity of citronellol. Lipid peroxidation and antioxidant levels were quantified to evaluate the antioxidant activity of citronellol. The anti-inflammatory activity of citronellol was assessed by quantifying proinflammatory cytokines using commercially available ELISA kits. Results: Citronellol treatment significantly ameliorated neuronal damage in both cellular and animal stroke models. Prior treatment of citronellol significantly decreased the inflammatory cytokines and increased the antioxidants. Citronellol treatment effectively protected the rats from MCAO/R-induced brain edema. Conclusion: Our results confirm that citronellol is an effective anti-ischemic drug with antioxidant and anti-inflammatory properties.

This study aimed to investigate how opioids affect phagocytosis and microglial nitrite and nitric oxide synthase (iNOS) production during inflammation. Background: Opioids are a group of chemicals that are naturally found in the opium poppy plant and exert a variety of effects on the brain, including pain alleviation in some cases. They are commonly used in surgery and perioperative analgesia. However, research on the impact of opioids on microglial inflammatory factor production and phagocytosis is limited. Objectives: This study was designed to investigate the effects of opioids on inducible nitric oxide synthase (iNOS) activity and nitric oxide (NO) generation. Moreover, the influence of opioids on the engulfment of C8-B4 microglial cells after stimulation with LPS was also examined. Methods: C8-B4 mouse microglial cells were exposed to various concentrations of opioids after stimulation with lipopolysaccharide (LPS) and interferon-γ (IFN-γ). Nitrite production was assayed. The iNOS and Cox-2 were determined by Western blotting, and fluorescent immunostaining was performed to assess the percentage of microglia that engulfed fluorescent microspheres in total microglia cultivating with opioids after being activated by LPS. Results: After LPS and IFN-γ stimulation, microglia produced lower amounts of nitric oxide (NO) production with buprenorphine, salvinorin A, and naloxone (P<0.05). When combined with naloxone, no significant differences were found than buprenorphine. It was observed that buprenorphine and salvinorin A could suppress iNOS expression activated by LPS and IFN-γ. Phagocytosis was greatly increased after LPS stimulation, and a significant increase was observed after adding salvinorin A. Conclusion: Buprenorphine and salvinorin A were found to reduce NO production and iNOS induction in microglial cells activated by LPS and IFN-γ. Salvinorin A promoted the phagocytosis of microglia cells treated by LPS.

Aim: Hepatocellular carcinoma (HCC) is the world's second leading cause of cancerrelated mortality and the fifth most prevalent cancer overall. Several synthetic and plant-based remedies are in practice to treat diverse liver disorders. Because of their minimal side effects and protective characteristics, plant phenolics have the potential to become alternative therapeutics, replacing currently existing HCC medications. The present study identifies the plant phenolics as having the capacity to inhibit HCC with low side effects and cost efficiency. Background: Hepatocellular carcinoma (HCC) is the leading cause of cancer-related mortality, despite the proven effectiveness of screening programs for at-risk individuals, the majority of patients have disease progression or tumor characteristics that preclude curative therapies at the time of diagnosis. Acteoside (Verbascoside) is a naturally occurring phenylethanoid glycoside found throughout the plant kingdom. Acteoside is a physiologically active chemical with the number of pharmacological and protective effects against various liver illnesses. Objectives: Currently used HCC medications have a variety of side effects. Plant-based chemicals offer the possibility of treating HCC with minimal side effects. The work is targeted to find the best phytochemical (plant phenolic) lead molecule for future drug development research against Hepatocellular carcinoma. Methods: The targets were selected based on an analysis of relevant literature, and the 3D structures of the selected receptors were obtained in. pdb format from the RCSB-Protein data bank (PDB, http://www.rscb.org/pdb). Based on a review of the literature, sixty plant secondary metabolites, or plant phenolics, were selected. The ligand structures were obtained and downloaded in.sdf format from the NCBI PubChem chemicals database (https://pubchem.ncbi.nlm.nih.gov/). Molecular docking between the receptor and ligands was accomplished using the Molegro Virtual Docker 6.0 (MVD) software. Results: The target RAF1, BRAF chain 1, TIE2 chain 2 FGFR1, FGFR2, AXL, and FGFR4 showed the best binding effectiveness with acteoside compared to their respective positive control. RET chain 1 and BRAF chain 2 acteoside showed prominent binding efficacy after Curcumin, and Epigallocatechingallate, respectively, against positive control. Present findings clearly point towards the potentiality of acteoside in inhibiting various HCC targets. Conclusion: Acteoside may be used as a prominent lead molecule in the future treatment of hepatic cancer with its multifaceted binding efficiencies against various target proteins.

Background: Potatoes are extremely important compared to other vegetable crops. Several species of fungi cause severe damage to different components of the plant (leaves, stems, and tubers), leading to significant losses during cultivation and even after harvest. In the framework of the investigation for alternative methods against the proliferation of these fungi, the present work focuses on the study of the antifungal effect of essential oils of some plants that could be used to solve these problems without the use of harmful chemical substances. Aim and Purpose: This study aims to discuss the chemical composition of essential oils of Artemisia herba alba and Ammoides verticillata and evaluate their in vitro and in vivo antifungal activities in order to prevent fungal diseases of potatoes and replace chemical pesticides that cause neurodegenerative diseases. Methods: Essential oils extracted from the aerial parts of the plants Artemesia herba alba and Ammoides verticillata were analyzed by gas chromatography-mass spectrometry (GC/MS) and tested individually and in combination for their antifungal effects against Fusarium solani, Penicillium expansum, and Aspergillus flavus, by the radial growth technique. Results: The essential oil of A. herba alba was mainly composed of hydrocarbon monoterpenes (80.8%), while the oil of A. verticillata was mainly composed of oxygenated monoterpenes (54.4%). The study on the antifungal effect of essential oils in vitro showed that essential oil of A. verticillata was more effective against P. expansum (64.40%) than A. flovus (41.10%) and F. Solani (53.30%), and the oil of A.herba alba was more effective against A. flavus (54.40%) and (42%) F. Solani. While the combination of these two essential oils of A. verticillata and A. herba-alba gave excellent results, i.e., 100% against P. expansum and A. flavus and 94.40% against F. solani and provided an in vivo protection to the potato in the range of 80% to 90% against the three fungi. Conclusion: A. herba alba and A. verticillata individual and combined essential oils are very effective antifungal biocides that can be used as an alternative to chemical pesticides to prevent their harmful effects on health.

Background and Objective: Chronic prostatitis (CP) is one of the most common diseases in young and middle-aged men but lacks effective treatment. Shuangshi Tonglin Capsule (SSTLC) is a clinical drug for the treatment of chronic prostatitis. However, the underlying molecular mechanisms of SSTLC in treating CP are still unclear. In this study, we researched the underlying mechanisms of SSTLC in treating chronic prostatitis. Methods: The ingredients of SSTLC were received from the TCMSP and BATMAN databases, and the CP targets were collected based on GeneCards and OMIM. Then, the PPI network and the “drug-ingredient-target” network map were constructed. GO and KEGG enrichment analyses by using DAVID. Molecular docking was performed by using AutoDock 4.2 and PyMol. And using animal experiments to verify the potential effect of SSTLC in CP. Results: SSTLC contained 10 herbs, 158 chemical ingredients and 277 targets, 2002, diseaserelated targets were obtained. Network analysis outcomes indicated that VEGFA, TNF, MAPK1, EGFR, and MAPK8 are the key targets of SSTLC in treating chronic prostatitis. Furthermore, molecular docking revealed that quercetin, luteolin, and kaempferol exhibited a strong binding effect. Animal experimental indicated that SSTLC can reduce the pathological damage to prostate tissue. And, we found that high-dose SSTLC significantly reduced the level of TNF-α and downregulated the expression of EGFR, p-p38 and p-ERK1/2 (P<0.05). Conclusion: This study determined the pharmacological effects of SSTLC and the potential mechanism of action on SSTLC to treat CP, it provides a new idea for traditional Chinese medicine to treat chronic prostatitis.