基于网络药理学及分子对接方法分析川贝母治疗肺炎的分子机制
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Analysis of Molecular Mechanism of Fritillariae Cirrhosae Bulbus in Treating Pneumonia Based on Network Pharmacology and Molecular Docking
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    目的:运用网络药理学分析方法和分子对接分析方法,分析川贝母治疗肺炎的分子机制,为后续 研究提供理论依据。方法: 根据已发表的文献和数据库及ADEM 参数筛选川贝母的有效成分, 在 SwissTargetPrediction,Similarity ensemble approach 等数据库上查找川贝母所有有效成分的靶点,在DisgeNet、 GeneCards 等数据库中查找肺炎的治疗靶点,通过韦恩图求靶点的交集即为川贝母治疗肺炎的治疗靶点,通过 String 数据库构建治疗靶点PPI 网络图,运用Cytoscape3.8.0 自带应用程序CytoNCA 筛选出综合集中性前五的 靶点即为川贝母治疗肺炎的核心靶点,在Metascape 网站上进行靶点基因GO 富集和KEGG 通路富集,应用 Cytoscape3.8.0 构建有效成分和治疗肺炎靶点网络图,应用Discovery studio 2019 中的Cdocker 对选定有效成分 和核心靶点进行分子对接。结果:共筛选出59 种有效成分,包括生物碱类物质22 种,有机酸类物质20 种,核苷类物质8 种,其他类物质9 种,韦恩图筛选出100 个川贝母治疗肺炎的靶点,经过集中性筛选选出川 贝母治疗肺炎的5 个核心靶点,分别为STAT3、AKT1、SRC、MAPK3 和EGFR。GO 富集和KEGG 通路富集 分析发现川贝母治疗肺炎的靶点分子功能富集于丝氨酸型肽酶活性、跨膜受体蛋白酪氨酸激酶活性、激酶绑定 等,生物过程富集于白细胞游走、细胞与细胞黏附调节、防御反应调节等,细胞组分富集于膜筏区域、质膜外 侧部、囊腔等部位,KEGG 通路富集于癌症通路、糖尿病并发症的AGE-RAGE 信号通路、乙肝通路等,其中 核心靶点均参与的生物过程包括细胞因子信号通路和蛋白质的正调节过程,KEGG 通路包括AGE-RAGE 信 号通路在糖尿病并发症中的作用、乙型肝炎、趋化因子信号通路等;分子对接显示川贝母的生物碱成分能与 STAT3、AKT1 进行分子对接,有机酸成分能与EGFR 进行分子对接。结论:川贝母通过多种靶点、多通路和 多途径治疗肺炎,活性成分具有良好的类药性。

    Abstract:

    Abstract: Objective: To analyze the molecular mechanism of Fritillariae Cirrhosae Bulbus in treating pneumonia by applying methods of network pharmacology and molecular docking, so as to provide theoretical basis for subsequent research. Methods: The effective ingredients of Fritillariae Cirrhosae Bulbus were screened according to the published literature,database and ADEM parameters;the targets of all the effective ingredients of Fritillariae Cirrhosae Bulbus were found on the SwissTargetPrediction, Similarity ensemble approach and other databases;the therapeutic targets of pneumonia were searched in the DisgeNet,GeneCards and other databases;the intersections of the targets through the Venn diagram were the treatment targets of Fritillariae Cirrhosae Bulbus for pneumonia;the PPI network of the treatment targets was built through the String database; the top five targets of comprehensive concentration were screened out by using Cypnas in Cytoscape 3.8.0,serving as the core targets of Fritillariae Cirrhosae Bulbus for the treatment of pneumonia; the target gene GO enrichment and KEGG pathway enrichment were carried out on the Metascape website; the network diagram of targets of effective ingredients and treatment for pneumonia were constructed by using Cytoscape 3.8.0; the selected effective ingredients and core targets were given molecular docking by using Cdocker in Discovery Studio 2019. Results:A total of 59 effective ingredients were screened, including 22 alkaloids, 20 organic acids, 8 nucleosides and 9 other substances. A total of 100 targets of Fritillariae Cirrhosae Bulbus for the treatment of pneumonia were screened out by Venn diagram. After concentrated screening,5 core targets of Fritillariae Cirrhosae Bulbus for the treatment of pneumonia were selected as STAT3, AKT1, SRC, MAPK3 and EGFR respectively. The analysis of GO enrichment and KEGG pathway enrichment found that the molecular functions of the targets of Fritillariae Cirrhosae Bulbus for pneumonia were enriched in serine- type peptidase activity,protein tyrosine kinase activity of transmembrane receptors,kinase binding,etc;the biological processes were enriched in leukocyte migration,regulation of cell- cell adhesion,regulation of defense response,etc;the cell constituents were enriched in the membrane raft,the lateral part of the plasma membrane and the cyst cavity,etc;the KEGG pathway was enriched in the AGE-RAGE signaling pathway and hepatitis B signaling pathway of cancer pathway and diabetes complications; the biological processes in which core targets were involved included cytokine signaling pathway and positive regulation process of protein, and KEGG pathway included the role of AGE- RAGE signaling pathway in diabetes complications,and hepatitis B,and chemokine signaling pathway,etc;molecular docking showed that the alkaloid components of Fritillariae Cirrhosae Bulbus could dock with STAT3 and AKT1,and the organic acid ingredients could dock with EGFR. Conclusion:Fritillariae Cirrhosae Bulbus treats pneumonia through multiple targets,multiple pathways and multiple approaches,and the active ingredients have good druglike properties.

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张伟,刘闪闪,魏冉,潘梦瑾,赵敏,郎婧,郭劲松,张胜安.基于网络药理学及分子对接方法分析川贝母治疗肺炎的分子机制[J].新中医,2023,55(3):7-16

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  • 在线发布日期: 2023-02-17
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