Figure - available from: Frontiers in Neuroscience
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The screening process of core genes between cognitive impairment (CI) and berberine (BBR). (A) Venn diagram of CI and BBR overlapping genes. (B) Intersecting genes after screening. (C) Protein-protein interaction (PPI) network of intersecting genes. (D) PPI network of significant targets extracted from Panel (C). (E) PPI network of candidate BBR targets for CI extracted from Panel (D).
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Objective
To analyze the effects and mechanisms of berberine in the treatment of aging-related cognitive dysfunction based on network pharmacology methods, molecular docking techniques, and animal experiments.
Methods
A mouse model of cognitive dysfunction was constructed by subcutaneous injection of D-galactose (D-gal) for 10 weeks, and the neuro...
Citations
... TIMER database was used for evaluating the relationship with TPX2 and the markers of TILs [26]. Besides, the X-ray crystal structures of TRX2 (6BJC) and (3BIK) were retrieved from the Protein Data Bank, and AutoDockTools-1.5.7 was applied for the molecular docking of TPX2 and PD-L1 [27]. The water molecules were manually eliminated from the protein and the polar hydrogen was added. ...
Background:
This study aims to identify the essential cell cycle-related genes associated with prognosis in breast cancer (BRCA), and to verify the relationship between the central gene and immune infiltration, so as to provide detailed and comprehensive information for the treatment of BRCA.
Materials and methods:
Gene expression profiles (GSE10780, GSE21422, GSE61304) and the Cancer Genome Atlas (TCGA) BRCA data were used to identify differentially expressed genes (DEGs) and further functional enrichment analysis. STRING and Cytoscape were employed for the protein-protein interaction (PPI) network construction. TPX2 was viewed as the crucial prognostic gene by the Survival and Cox analysis. Furthermore, the connection between TPX2 expression and immune infiltrating cells and immune checkpoints in BRCA was also performed by the TIMER online database and R software.
Results:
A total of 18 cell cycle-related DEGs were identified in this study. Subsequently, an intersection analysis based on TCGA-BRCA prognostic genes and the above DEGs identified three genes (TPX2, UBE2C, CCNE2) as crucial prognostic candidate biomarkers. Moreover, we also demonstrated that TPX2 is closely associated with immune infiltration in BRCA and a positive relation between TPX2 and PD-L1 expression was firstly detected.
Conclusions:
These results revealed that TPX2 is a potential prognostic biomarker and closely correlated with immune infiltration in BRCA, which could provide powerful and efficient strategies for breast cancer immunotherapy.
... Berberine inhibits neuroinflammation, oxidation, and endoplasmic reticulum stress production, exhibiting neuroprotective, antioxidant, and antiinflammatory properties, thereby reducing neuronal damage and apoptosis . Multiple studies emphasize berberine's efficacy in enhancing conditions related to cognitive impairment (Fang et al., 2020;Zhang et al., 2021a;Yao et al., 2023). Research indicates that berberine (BBR) curbs Aβ-induced microglia activity by modulating suppressor of cytokine signaling 1 (SOCS 1) (Guo et al., 2021a). ...
Introduction: Berberine is an isoquinoline alkaloid extracted from Berberis vulgaris, which possesses a variety of pharmacological activities. Alzheimer’s disease (AD) is a complex disease with multiple pathologic factors, with cognitive decline being the main manifestation of AD. The neuroprotective effects of berberine in animal models of Alzheimer’s disease (AD) have been widely reported, exhibiting protective effects against risk factors associated with AD. In this study, we summarize and evaluate the effects of berberine on cognitive function and β-amyloid precursor protein in animal models of AD.
Material and methods: Eligible studies were retrieved from PubMed, MEDLINE, EMBASE, Web of Science, and Cochrane Library databases up to 1 June 2023. Risk of bias was assessed by the Systematic Review Center for Laboratory Animal Experiments (SYRCLE). Statistical analyses were performed using STATA 14.0 and Review Manger 5.4 software to calculate weighted standardized mean difference (SMD) and 95% confidence intervals (CI), Morris water maze (MWM) test and β-amyloid precursor protein as outcome measures. Heterogeneity was tested using the I² test. Sensitivity analysis and publication bias were also assessed.
Results: 19 studies involving 360 animals met the inclusion criteria, and the results of the meta-analysis showed that berberine decreased escape latency (SMD = −2.19, 95% CI: (−2.50, −1.88), p < 0.00001), increased the number of platform crossings (SMD = 4.27, 95% CI (3.38, 5.17), p < 0.00001), time in the target quadrant (SMD = 5.92, 95% CI (4.43, 7.41), p < 0.00001) and APP expression (SMD = 0.73, 95% CI: (0.25, 1.21), p = 0.003).
Conclusion: Berberine can regulate APP expression and improve cognitive function in animal models of AD, and the mechanism may be related to the involvement of berberine in APP processing and influence the expression of its related factors.
Systematic review registration: PROSPERO, CRD42023437445
... In addition, GSE16011 was also included in this research to verify the accuracy of the model. As in our previous study, the microarray data was processed [17]. To make comparisons between samples easier, TCGA RNA sequencing data were converted to transcripts per kilobasemillion (TPM) values. ...
Background:
The clinical outcomes of low-grade glioma (LGG) are associated with T cell infiltration, but the specific contribution of heterogeneous T cell types remains unclear.
Method:
To study the different functions of T cells in LGG, we mapped the single-cell RNA sequencing results of 10 LGG samples to obtain T cell marker genes. In addition, bulk RNA data of 975 LGG samples were collected for model construction. Algorithms such as TIMER, CIBERSORT, QUANTISEQ, MCPCOUTER, XCELL, and EPIC were used to depict the tumor microenvironment landscape. Subsequently, three immunotherapy cohorts, PRJEB23709, GSE78820, and IMvigor210, were used to explore the efficacy of immunotherapy.
Results:
The Human Primary Cell Atlas was used as a reference dataset to identify each cell cluster; a total of 15 cell clusters were defined and cells in cluster 12 were defined as T cells. According to the distribution of T cell subsets (CD4+ T cell, CD8+ T cell, Naïve T cell, and Treg cell), we selected the differentially expressed genes. Among the CD4+ T cell subsets, we screened 3 T cell-related genes, and the rest were 28, 4, and 13, respectively. Subsequently, according to the T cell marker genes, we screened six genes for constructing the model, namely, RTN1, HERPUD1, MX1, SEC61G, HOPX, and CHI3L1. The ROC curve showed that the predictive ability of the prognostic model for 1, 3, and 5 years was 0.881, 0.817, and 0.749 in the TCGA cohort, respectively. In addition, we found that risk scores were positively correlated with immune infiltration and immune checkpoints. To this end, we obtained three immunotherapy cohorts to verify their predictive ability of immunotherapy effects and found that high-risk patients had better clinical effects of immunotherapy.
Conclusion:
This single-cell RNA sequencing combined with bulk RNA sequencing may elucidate the composition of the tumor microenvironment and pave the way for the treatment of low-grade gliomas.
Aging is a normal process related to some factors, especially genetics, lifestyle, and environmental factors. The effects of reactive oxygen species (ROS), mitochondrial DNA (mtDNA) mutations, telomere shortening, and hormonal alterations are all mechanisms for aging skin. It is well-reported that ROS is one of the leading causes of skin aging and is closely related to it. Natural products promise the uniqueness of diverse resources and fewer adverse side effects. Some natural products have recently been discovered to slow aging and lengthen longevity. Interestingly, studies show that various chemical substances of tropical biomass, also called phytochemicals, have been investigated to possess potential anti-inflammatory and antioxidant properties. These properties are essential to developing natural anti-aging agents. The tropical forest provides a diversity of plants and other biomass that have the potential to become essential sources of phytochemicals. This article reviews the potential of tropical plants and phytochemicals as natural anti-aging agents as an alternative to available anti-aging agents.
Brain aging is an irretrievable process that occurs in the elderly population and inescapable phase of the entity. Aging is associated with complex and multifactorial portent with tedious decrement in behavioral and physiological actions. The decline in memory and cognition corresponds with the anatomical changes in neuronal plasticity with dendritic spines. This augments with neurochemical and neurophysiological alterations. Brain aging is unified by anatomical and physiological changes that include the brain weight and volume, synaptic density, thickness of cortex, and dysregulation of energy metabolism. Many features of aging are meticulous molecular mechanisms that are still unclear. The signaling pathway of brain aging embraces autophagy, oxidative stress, mitochondrial dysfunction, cell proliferating capacity, senescent associated secretions, and epigenetical alterations. This chapter also discusses the novel phytochemical that acts as the antiaging agents. Phytochemicals have a profound effect on brain aging in many aspects which maintain chemical balances. Phytochemicals are secondary metabolites of the plants. The phytochemicals affect the modulation of cellular signaling pathways such as disruption in mitochondrial function, neuroinflammation, neurotropic factor deficiency, apoptosis, oxidative stress, and abnormal protein aggregation to conflict against age-related neurodegeneration. Phytochemicals like berberine, phenolic compound, resveratrol, omega 3 fatty acids, and cocoa and their actions on cellular signaling are widely discussed in this chapter.
Aging is characterized by a decline in biological functions, leading to various health issues. There is significant interest in mitigating age and age-related health issues. Gut microbiota has emerged as a crucial target for combating aging and influencing host health. This study evaluated the anti-aging effects of Lactiplantibacillus plantarum CCFM8661 in mice and the role of the gut microbiota in mediating its effects. Aging was induced in mice using D-galactose, and L. plantarum CCFM8661 was orally administered for 8 weeks to evaluate its effects on age-related decline and the gut microbiota. The results demonstrated that supplementation with L. plantarum CCFM8661 effectively alleviated cognitive impairment and oxidative stress in the aging brain, as well as liver oxidation and bone damage, and impaired intestinal barrier function in aging mice. Furthermore, L. plantarum CCFM8661 modulated the gut microbiota of aging mice, increasing the abundance of beneficial bacteria, such as Ruminococcaceae, and influenced the functionality of the gut microbiota to promote the production of active metabolites. These findings suggest that L. plantarum CCFM8661 has a mitigating effect on organismal aging, especially brain aging.
