Integrated transcriptomic and metabolomic analysis of the antibacterial mechanism of Rhizoma Coptidis extract against Staphylococcus epidermidis ATCC 35984
Abstract Background Biofilm formation is a key virulence factor in Staphylococcus epidermidis. Rhizoma Coptidis, the medicinal root of Coptis chinensis, has been traditionally used in Chinese medicine for its broad-spectrum antimicrobial properties. Results This study investigated the antibacterial...
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BMC
2025-08-01
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| Series: | BMC Microbiology |
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| Online Access: | https://doi.org/10.1186/s12866-025-04169-z |
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| author | Lizhuang Wang Yan Xing Shuai Yang Huan Zhang Laiji Ma Li Shao |
| author_facet | Lizhuang Wang Yan Xing Shuai Yang Huan Zhang Laiji Ma Li Shao |
| author_sort | Lizhuang Wang |
| collection | DOAJ |
| description | Abstract Background Biofilm formation is a key virulence factor in Staphylococcus epidermidis. Rhizoma Coptidis, the medicinal root of Coptis chinensis, has been traditionally used in Chinese medicine for its broad-spectrum antimicrobial properties. Results This study investigated the antibacterial and anti-biofilm effects of Rhizoma Coptidis extract against S. epidermidis ATCC 35984. UPLC-MS/MS analysis revealed the chemical composition of the extract. The extract significantly reduced ATPase and succinate dehydrogenase activities, decreased membrane potential, and disrupted cell wall and membrane integrity. These effects led to increased extracellular alkaline phosphatase activity and leakage of proteins and nucleic acids. Anti-biofilm activity was further confirmed using scanning electron microscopy and confocal laser scanning microscopy. Transcriptomic and metabolomic analyses identified significant changes in 366 genes and 286 metabolites after treatment. Integrated omics analysis suggested that the extract impaired cell membrane and wall integrity, disrupted amino acid and nucleic acid metabolism, inhibited the TCA cycle, reduced nitrate reductase activity, suppressed efflux systems, and hindered biofilm formation. Conclusions The study provides new insights into the antibacterial and anti-biofilm mechanisms of Rhizoma Coptidis extract against S. epidermidis, highlighting its potential as a therapeutic agent for combating biofilm-associated infections. |
| format | Article |
| id | doaj-art-860e799d9ef5481aa520bc3f110e5a2f |
| institution | DOAJ |
| issn | 1471-2180 |
| language | English |
| publishDate | 2025-08-01 |
| publisher | BMC |
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| series | BMC Microbiology |
| spelling | doaj-art-860e799d9ef5481aa520bc3f110e5a2f2025-08-20T03:04:10ZengBMCBMC Microbiology1471-21802025-08-0125112110.1186/s12866-025-04169-zIntegrated transcriptomic and metabolomic analysis of the antibacterial mechanism of Rhizoma Coptidis extract against Staphylococcus epidermidis ATCC 35984Lizhuang Wang0Yan Xing1Shuai Yang2Huan Zhang3Laiji Ma4Li Shao5School of Perfume and Aroma Technology, Shanghai Institute of TechnologySchool of Perfume and Aroma Technology, Shanghai Institute of TechnologyShandong Academy of Pharmaceutical SciencesSchool of Perfume and Aroma Technology, Shanghai Institute of TechnologySchool of Perfume and Aroma Technology, Shanghai Institute of TechnologySchool of Perfume and Aroma Technology, Shanghai Institute of TechnologyAbstract Background Biofilm formation is a key virulence factor in Staphylococcus epidermidis. Rhizoma Coptidis, the medicinal root of Coptis chinensis, has been traditionally used in Chinese medicine for its broad-spectrum antimicrobial properties. Results This study investigated the antibacterial and anti-biofilm effects of Rhizoma Coptidis extract against S. epidermidis ATCC 35984. UPLC-MS/MS analysis revealed the chemical composition of the extract. The extract significantly reduced ATPase and succinate dehydrogenase activities, decreased membrane potential, and disrupted cell wall and membrane integrity. These effects led to increased extracellular alkaline phosphatase activity and leakage of proteins and nucleic acids. Anti-biofilm activity was further confirmed using scanning electron microscopy and confocal laser scanning microscopy. Transcriptomic and metabolomic analyses identified significant changes in 366 genes and 286 metabolites after treatment. Integrated omics analysis suggested that the extract impaired cell membrane and wall integrity, disrupted amino acid and nucleic acid metabolism, inhibited the TCA cycle, reduced nitrate reductase activity, suppressed efflux systems, and hindered biofilm formation. Conclusions The study provides new insights into the antibacterial and anti-biofilm mechanisms of Rhizoma Coptidis extract against S. epidermidis, highlighting its potential as a therapeutic agent for combating biofilm-associated infections.https://doi.org/10.1186/s12866-025-04169-zRhizoma Coptidis extractStaphylococcus epidermidisAntibacterial activityBiofilmTranscriptomicMetabolomic |
| spellingShingle | Lizhuang Wang Yan Xing Shuai Yang Huan Zhang Laiji Ma Li Shao Integrated transcriptomic and metabolomic analysis of the antibacterial mechanism of Rhizoma Coptidis extract against Staphylococcus epidermidis ATCC 35984 BMC Microbiology Rhizoma Coptidis extract Staphylococcus epidermidis Antibacterial activity Biofilm Transcriptomic Metabolomic |
| title | Integrated transcriptomic and metabolomic analysis of the antibacterial mechanism of Rhizoma Coptidis extract against Staphylococcus epidermidis ATCC 35984 |
| title_full | Integrated transcriptomic and metabolomic analysis of the antibacterial mechanism of Rhizoma Coptidis extract against Staphylococcus epidermidis ATCC 35984 |
| title_fullStr | Integrated transcriptomic and metabolomic analysis of the antibacterial mechanism of Rhizoma Coptidis extract against Staphylococcus epidermidis ATCC 35984 |
| title_full_unstemmed | Integrated transcriptomic and metabolomic analysis of the antibacterial mechanism of Rhizoma Coptidis extract against Staphylococcus epidermidis ATCC 35984 |
| title_short | Integrated transcriptomic and metabolomic analysis of the antibacterial mechanism of Rhizoma Coptidis extract against Staphylococcus epidermidis ATCC 35984 |
| title_sort | integrated transcriptomic and metabolomic analysis of the antibacterial mechanism of rhizoma coptidis extract against staphylococcus epidermidis atcc 35984 |
| topic | Rhizoma Coptidis extract Staphylococcus epidermidis Antibacterial activity Biofilm Transcriptomic Metabolomic |
| url | https://doi.org/10.1186/s12866-025-04169-z |
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