{"title":"白头翁有效成分的UHPLC-QTOF-MS/MS及网络药理学分析对溃疡性结肠炎的影响。","authors":"Jiaojiao Zhang, Xing Chen, Yuman Li, Xue Ma, Nuo Xu, Tuanjie Wang, Yun Shi, Kunming Qin","doi":"10.2174/0113862073358579250428103652","DOIUrl":null,"url":null,"abstract":"<p><strong>Background: </strong>Pulsatillae radix (PR), a medicinal root plant and a well-known Chinese herbal remedy, is primarily used for its heat-clearing, detoxifying, blood-cooling, and antiinflammatory properties. This study aimed to investigate the underlying mechanisms by which PR exerts therapeutic effects on ulcerative colitis (UC) through an integrated approach, combining ultra-high performance liquid chromatography with quadrupole time-of-flight mass spectrometry (UHPLC-Q-TOF-MS/MS), network pharmacology, and molecular docking.</p><p><strong>Methods: </strong>The constituents of PR were systematically analyzed using UHPLC-Q-TOF-MS/MS. Potential targets of active components were identified via the SwissTargetPrediction and PharmMapper databases, while UC-related disease targets were retrieved from GeneCard, OMIM, and other relevant databases. Overlapping targets between PR and UC were determined using Venn analysis. Cytoscape software facilitated the construction of the compound-disease-target network. The STRING database was employed to generate a protein-protein interaction (PPI) network for the intersecting targets, and core targets were identified using the CytoNCA plugin. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were conducted using the DAVID platform. Lastly, molecular docking of key components with target proteins was carried out using PyMOL.</p><p><strong>Results: </strong>A total of 27 active compounds, 237 drug targets, and 4622 disease targets were identified. Intersection analysis revealed 141 shared targets, while the PPI network identified 10 hub targets. GO and KEGG enrichment analyses indicated that the hub targets were primarily associated with phosphorylation, cytoplasmic functions, nuclear receptor activity, as well as pathways related to the advanced glycation end products-receptor for advanced glycation end products (AGE-RAGE) signaling, T cell receptor (TCR) signaling, lipid and cholesterol metabolism, and various cancer-related pathways. Molecular docking experiments demonstrated that (+)- pinoresinol, cichoric acid, β-ecdysone, pulsatilla saponin D, 23-HBA, and AB4 exhibited stable binding to PIK3R1, TLR4, and ESR1, with AB4 forming the most stable complex with ESR1.</p><p><strong>Conclusion: </strong>This study established a rapid and effective UHPLC-Q-TOF-MS/MS method for characterizing the main chemical components of PR. Using network pharmacology and molecular docking, the active components and potential mechanisms of PR involved in the UC treatment were investigated, providing a foundation for future experimental studies on pharmacodynamics and the underlying mechanisms.</p>","PeriodicalId":10491,"journal":{"name":"Combinatorial chemistry & high throughput screening","volume":" ","pages":""},"PeriodicalIF":1.6000,"publicationDate":"2025-05-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"An Analysis of Effective Components of Pulsatillae radix Using UHPLC-QTOF-MS/MS and Network Pharmacology to Investigate its Effects on Ulcerative Colitis.\",\"authors\":\"Jiaojiao Zhang, Xing Chen, Yuman Li, Xue Ma, Nuo Xu, Tuanjie Wang, Yun Shi, Kunming Qin\",\"doi\":\"10.2174/0113862073358579250428103652\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><strong>Background: </strong>Pulsatillae radix (PR), a medicinal root plant and a well-known Chinese herbal remedy, is primarily used for its heat-clearing, detoxifying, blood-cooling, and antiinflammatory properties. This study aimed to investigate the underlying mechanisms by which PR exerts therapeutic effects on ulcerative colitis (UC) through an integrated approach, combining ultra-high performance liquid chromatography with quadrupole time-of-flight mass spectrometry (UHPLC-Q-TOF-MS/MS), network pharmacology, and molecular docking.</p><p><strong>Methods: </strong>The constituents of PR were systematically analyzed using UHPLC-Q-TOF-MS/MS. Potential targets of active components were identified via the SwissTargetPrediction and PharmMapper databases, while UC-related disease targets were retrieved from GeneCard, OMIM, and other relevant databases. Overlapping targets between PR and UC were determined using Venn analysis. Cytoscape software facilitated the construction of the compound-disease-target network. The STRING database was employed to generate a protein-protein interaction (PPI) network for the intersecting targets, and core targets were identified using the CytoNCA plugin. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were conducted using the DAVID platform. Lastly, molecular docking of key components with target proteins was carried out using PyMOL.</p><p><strong>Results: </strong>A total of 27 active compounds, 237 drug targets, and 4622 disease targets were identified. Intersection analysis revealed 141 shared targets, while the PPI network identified 10 hub targets. GO and KEGG enrichment analyses indicated that the hub targets were primarily associated with phosphorylation, cytoplasmic functions, nuclear receptor activity, as well as pathways related to the advanced glycation end products-receptor for advanced glycation end products (AGE-RAGE) signaling, T cell receptor (TCR) signaling, lipid and cholesterol metabolism, and various cancer-related pathways. Molecular docking experiments demonstrated that (+)- pinoresinol, cichoric acid, β-ecdysone, pulsatilla saponin D, 23-HBA, and AB4 exhibited stable binding to PIK3R1, TLR4, and ESR1, with AB4 forming the most stable complex with ESR1.</p><p><strong>Conclusion: </strong>This study established a rapid and effective UHPLC-Q-TOF-MS/MS method for characterizing the main chemical components of PR. Using network pharmacology and molecular docking, the active components and potential mechanisms of PR involved in the UC treatment were investigated, providing a foundation for future experimental studies on pharmacodynamics and the underlying mechanisms.</p>\",\"PeriodicalId\":10491,\"journal\":{\"name\":\"Combinatorial chemistry & high throughput screening\",\"volume\":\" \",\"pages\":\"\"},\"PeriodicalIF\":1.6000,\"publicationDate\":\"2025-05-14\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Combinatorial chemistry & high throughput screening\",\"FirstCategoryId\":\"3\",\"ListUrlMain\":\"https://doi.org/10.2174/0113862073358579250428103652\",\"RegionNum\":4,\"RegionCategory\":\"医学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q4\",\"JCRName\":\"BIOCHEMICAL RESEARCH METHODS\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Combinatorial chemistry & high throughput screening","FirstCategoryId":"3","ListUrlMain":"https://doi.org/10.2174/0113862073358579250428103652","RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"BIOCHEMICAL RESEARCH METHODS","Score":null,"Total":0}
An Analysis of Effective Components of Pulsatillae radix Using UHPLC-QTOF-MS/MS and Network Pharmacology to Investigate its Effects on Ulcerative Colitis.
Background: Pulsatillae radix (PR), a medicinal root plant and a well-known Chinese herbal remedy, is primarily used for its heat-clearing, detoxifying, blood-cooling, and antiinflammatory properties. This study aimed to investigate the underlying mechanisms by which PR exerts therapeutic effects on ulcerative colitis (UC) through an integrated approach, combining ultra-high performance liquid chromatography with quadrupole time-of-flight mass spectrometry (UHPLC-Q-TOF-MS/MS), network pharmacology, and molecular docking.
Methods: The constituents of PR were systematically analyzed using UHPLC-Q-TOF-MS/MS. Potential targets of active components were identified via the SwissTargetPrediction and PharmMapper databases, while UC-related disease targets were retrieved from GeneCard, OMIM, and other relevant databases. Overlapping targets between PR and UC were determined using Venn analysis. Cytoscape software facilitated the construction of the compound-disease-target network. The STRING database was employed to generate a protein-protein interaction (PPI) network for the intersecting targets, and core targets were identified using the CytoNCA plugin. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were conducted using the DAVID platform. Lastly, molecular docking of key components with target proteins was carried out using PyMOL.
Results: A total of 27 active compounds, 237 drug targets, and 4622 disease targets were identified. Intersection analysis revealed 141 shared targets, while the PPI network identified 10 hub targets. GO and KEGG enrichment analyses indicated that the hub targets were primarily associated with phosphorylation, cytoplasmic functions, nuclear receptor activity, as well as pathways related to the advanced glycation end products-receptor for advanced glycation end products (AGE-RAGE) signaling, T cell receptor (TCR) signaling, lipid and cholesterol metabolism, and various cancer-related pathways. Molecular docking experiments demonstrated that (+)- pinoresinol, cichoric acid, β-ecdysone, pulsatilla saponin D, 23-HBA, and AB4 exhibited stable binding to PIK3R1, TLR4, and ESR1, with AB4 forming the most stable complex with ESR1.
Conclusion: This study established a rapid and effective UHPLC-Q-TOF-MS/MS method for characterizing the main chemical components of PR. Using network pharmacology and molecular docking, the active components and potential mechanisms of PR involved in the UC treatment were investigated, providing a foundation for future experimental studies on pharmacodynamics and the underlying mechanisms.
期刊介绍:
Combinatorial Chemistry & High Throughput Screening (CCHTS) publishes full length original research articles and reviews/mini-reviews dealing with various topics related to chemical biology (High Throughput Screening, Combinatorial Chemistry, Chemoinformatics, Laboratory Automation and Compound management) in advancing drug discovery research. Original research articles and reviews in the following areas are of special interest to the readers of this journal:
Target identification and validation
Assay design, development, miniaturization and comparison
High throughput/high content/in silico screening and associated technologies
Label-free detection technologies and applications
Stem cell technologies
Biomarkers
ADMET/PK/PD methodologies and screening
Probe discovery and development, hit to lead optimization
Combinatorial chemistry (e.g. small molecules, peptide, nucleic acid or phage display libraries)
Chemical library design and chemical diversity
Chemo/bio-informatics, data mining
Compound management
Pharmacognosy
Natural Products Research (Chemistry, Biology and Pharmacology of Natural Products)
Natural Product Analytical Studies
Bipharmaceutical studies of Natural products
Drug repurposing
Data management and statistical analysis
Laboratory automation, robotics, microfluidics, signal detection technologies
Current & Future Institutional Research Profile
Technology transfer, legal and licensing issues
Patents.