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Praveen M, Ullah I, Buendia R, Khan IA, Sayed MG, Kabir R, Bhat MA, Yaseen M. Exploring Potentilla nepalensis Phytoconstituents: Integrated Strategies of Network Pharmacology, Molecular Docking, Dynamic Simulations, and MMGBSA Analysis for Cancer Therapeutic Targets Discovery. Pharmaceuticals (Basel) 2024; 17:134. [PMID: 38276007 PMCID: PMC10819299 DOI: 10.3390/ph17010134] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2023] [Revised: 01/12/2024] [Accepted: 01/12/2024] [Indexed: 01/27/2024] Open
Abstract
Potentilla nepalensis belongs to the Rosaceae family and has numerous therapeutic applications as potent plant-based medicine. Forty phytoconstituents (PCs) from the root and stem through n-hexane (NR and NS) and methanolic (MR and MS) extracts were identified in earlier studies. However, the PCs affecting human genes and their roles in the body have not previously been disclosed. In this study, we employed network pharmacology, molecular docking, molecular dynamics simulations (MDSs), and MMGBSA methodologies. The SMILES format of PCs from the PubChem was used as input to DIGEP-Pred, with 764 identified as the inducing genes. Their enrichment studies have shown inducing genes' gene ontology descriptions, involved pathways, associated diseases, and drugs. PPI networks constructed in String DB and network topological analyzing parameters performed in Cytoscape v3.10 revealed three therapeutic targets: TP53 from MS-, NR-, and NS-induced genes; HSPCB and Nf-kB1 from MR-induced genes. From 40 PCs, two PCs, 1b (MR) and 2a (MS), showed better binding scores (kcal/mol) with p53 protein of -8.6 and -8.0, and three PCs, 3a, (NR) 4a, and 4c (NS), with HSP protein of -9.6, -8.7, and -8.2. MDS and MMGBSA revealed these complexes are stable without higher deviations with better free energy values. Therapeutic targets identified in this study have a prominent role in numerous cancers. Thus, further investigations such as in vivo and in vitro studies should be carried out to find the molecular functions and interlaying mechanism of the identified therapeutic targets on numerous cancer cell lines in considering the PCs of P. nepalensis.
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Affiliation(s)
- Mallari Praveen
- Department of Zoology, Indira Gandhi National Tribal University, Amarkantak 484886, India;
| | - Ihsan Ullah
- Institute of Chemical Sciences, University of Swat, Main Campus, Charbagh 19130, Pakistan; (I.U.); (M.G.S.); (R.K.)
| | - Ricardo Buendia
- Department of Chemical Biological Sciences, Universidad de las Américas Puebla, Puebla 72810, Mexico;
| | - Imran Ahmad Khan
- Department of Chemistry, Government College University, Faisalabad 38000, Pakistan;
| | - Mian Gul Sayed
- Institute of Chemical Sciences, University of Swat, Main Campus, Charbagh 19130, Pakistan; (I.U.); (M.G.S.); (R.K.)
| | - Rahmul Kabir
- Institute of Chemical Sciences, University of Swat, Main Campus, Charbagh 19130, Pakistan; (I.U.); (M.G.S.); (R.K.)
| | - Mashooq Ahmad Bhat
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, Riyadh 11451, Saudi Arabia;
| | - Muhammad Yaseen
- Institute of Chemical Sciences, University of Swat, Main Campus, Charbagh 19130, Pakistan; (I.U.); (M.G.S.); (R.K.)
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Sharma S, Kumar V, Yaseen M, S Abouzied A, Arshad A, Bhat MA, Naglah AM, Patel CN, Sivakumar PK, Sourirajan A, Shahzad A, Dev K. Phytochemical Analysis, In Vitro Biological Activities, and Computer-Aided Analysis of Potentilla nepalensis Hook Compounds as Potential Melanoma Inhibitors Based on Molecular Docking, MD Simulations, and ADMET. Molecules 2023; 28:5108. [PMID: 37446769 DOI: 10.3390/molecules28135108] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Revised: 06/10/2023] [Accepted: 06/26/2023] [Indexed: 07/15/2023] Open
Abstract
Potentilla nepalensis Hook is a perennial Himalayan medicinal herb of the Rosaceae family. The present study aimed to evaluate biological activities such as the antioxidant, antibacterial, and anticancer activities of roots and shoots of P. nepalensis and its synergistic antibacterial activity with antibacterial drugs. Folin-Ciocalteau and aluminium chloride methods were used for the calculation of total phenolic (TPC) and flavonoid content (TFC). A DPPH radical scavenging assay and broth dilution method were used for the determination of the antioxidant and antibacterial activity of the root and shoot extracts of P. nepalensis. Cytotoxic activity was determined using a colorimetric MTT assay. Further, phytochemical characterization of the root and shoot extracts was performed using the Gas chromatography-mass spectrophotometry (GC-MS) method. The TPC and TFC were found to be higher in the methanolic root extract of P. nepalensis. The methanolic shoot extract of P. nepalensis showed good antioxidant activity, while then-hexane root extract of P. nepalensis showed strong cytotoxic activity against tested SK-MEL-28 cells. Subsequently, in silico molecular docking studies of the identified bioactive compounds predicted potential anticancer properties. This study can lead to the production of new herbal medicines for various diseases employing P. nepalensis, leading to the creation of new medications.
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Affiliation(s)
- Subhash Sharma
- Faculty of Applied Sciences and Biotechnology, Shoolini University, P.O. Box 9, Head Post Office, Solan 173212, India
| | - Vikas Kumar
- Department of Biotechnology, University Institute of Biotechnology, Chandigarh University, Gharuan, Mohali 140413, India
| | - Muhammad Yaseen
- Institute of Chemical Sciences, University of Swat, Charbagh, Swat 19130, Pakistan
| | - Amr S Abouzied
- Department of Pharmaceutical Chemistry, National Organization for Drug Control and Research (NODCAR), Giza 12311, Egypt
| | | | - Mashooq Ahmad Bhat
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, Riyadh 11451, Saudi Arabia
| | - Ahmed M Naglah
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Saud University, Riyadh 11451, Saudi Arabia
| | - Chirag N Patel
- Department of Botany, Bioinformatics and Climate Change Impacts Management, University School of Science, Gujarat University, Ahmedabad 380009, India
- Biotechnology Research Center, Technology Innovation Institute, Abu Dhabi 9639, United Arab Emirates
| | - Prasanth Kumar Sivakumar
- Department of Botany, Bioinformatics and Climate Change Impacts Management, University School of Science, Gujarat University, Ahmedabad 380009, India
| | - Anuradha Sourirajan
- Faculty of Applied Sciences and Biotechnology, Shoolini University, P.O. Box 9, Head Post Office, Solan 173212, India
| | - Adnan Shahzad
- Institute of Chemical Sciences, University of Swat, Charbagh, Swat 19130, Pakistan
| | - Kamal Dev
- Faculty of Applied Sciences and Biotechnology, Shoolini University, P.O. Box 9, Head Post Office, Solan 173212, India
- Department of Pharmacology and Toxicology, Wright State University, Dayton, OH 4543, USA
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Ievinsh G. Halophytic Clonal Plant Species: Important Functional Aspects for Existence in Heterogeneous Saline Habitats. PLANTS (BASEL, SWITZERLAND) 2023; 12:1728. [PMID: 37111952 PMCID: PMC10144567 DOI: 10.3390/plants12081728] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/17/2023] [Revised: 04/13/2023] [Accepted: 04/19/2023] [Indexed: 06/19/2023]
Abstract
Plant modularity-related traits are important ecological determinants of vegetation composition, dynamics, and resilience. While simple changes in plant biomass resulting from salt treatments are usually considered a sufficient indicator for resistance vs. susceptibility to salinity, plants with a clonal growth pattern show complex responses to changes in environmental conditions. Due to physiological integration, clonal plants often have adaptive advantages in highly heterogeneous or disturbed habitats. Although halophytes native to various heterogeneous habitats have been extensively studied, no special attention has been paid to the peculiarities of salt tolerance mechanisms of clonal halophytes. Therefore, the aim of the present review is to identify probable and possible halophytic plant species belonging to different types of clonal growth and to analyze available scientific information on responses to salinity in these species. Examples, including halophytes with different types of clonal growth, will be analyzed, such as based on differences in the degree of physiological integration, ramet persistence, rate of clonal expansion, salinity-induced clonality, etc.
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Affiliation(s)
- Gederts Ievinsh
- Department of Plant Physiology, Faculty of Biology, University of Latvia, 1 Jelgavas Str., LV-1004 Rīga, Latvia
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Tao J, Yan S, Zhou C, Liu Q, Zhu H, Wen Z. Total flavonoids from Potentilla kleiniana Wight et Arn inhibits biofilm formation and virulence factors production in methicillin-resistant Staphylococcus aureus (MRSA). JOURNAL OF ETHNOPHARMACOLOGY 2021; 279:114383. [PMID: 34214645 DOI: 10.1016/j.jep.2021.114383] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/05/2021] [Revised: 06/22/2021] [Accepted: 06/28/2021] [Indexed: 06/13/2023]
Abstract
ETHANOPHARMACOLOGICAL RELEVANCE Potentilla kleiniana Wight et Arn is a wide-spread wild plant in the mountainous areas in southern China. The whole herb has been used as a traditional herbal medicine to treat fever, arthritis, malaria, insect and snake bites, hepatitis, and traumatic injury. In vitro studies have reported the antibacterial activity use of the plant in traditional medicinal systems. AIM OF THE STUDY The aim of this study was to investigate the inhibitory activity of total flavonoid from Potentilla kleiniana Wight et Arn (TFP) on methicillin-resistant Staphylococcus aureus (MRSA) in planktonic state and biofilm state. MATERIALS AND METHODS Antibacterial activities of TFP on planktonic MRSA were determined by agar diffusion method, microtiter plate assay and time-kill curve assay. Electrical conductivity, membrane permeability, membrane potential and autoaggregation were analyzed to study TFP effects on planktonic MRSA growth. Crystal violet (CV) staining and confocal laser scanning microscopy (CLSM) were analyzed to study TFP effects on aggregation and maturation of MRSA biofilm. After TFP treatment, extracellular polymeric substances (EPS) production were examined. Morphological changes in planktonic and MRSA biofilm following TFP treatment were determined with scanning electron microscopy (SEM) and transmission electron microscopy (TEM). Moreover, α-Toxin protein expression and adhesion-related gene expression were also determined. RESULTS The minimum inhibitory concentration (MIC) of TFP against MRSA was 20 μg/mL. The agar diffusion method and time-kill curve assay results indicated that TFP inhibited planktonic MRSA growth. TFP treatment significantly inhibited planktonic MRSA growth by inhibiting autoaggregation, α-hemolysin activity, α-Toxin protein expression, but increasing electrolyte leakage, membrane permeability and membrane potential and impacting cell structure. Moreover, TFP treatment significantly inhibited aggregation and maturation on MRSA biofilm by decreasing surface hydrophobicity, EPS production and adhesion-related gene expression. CONCLUSION The results of this trial provide scientific experimental data on the traditional use of Potentilla Kleiniana Wight et Arn for traumatic injury treatment and further demonstrate the potential of TFP to be developed as a novel anti-biofilm drug.
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Affiliation(s)
- Junyu Tao
- College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen, 518000, China; Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Optoelectronic Engineering, Shenzhen University, Shenzhen, 518000, China; School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, 521041, China
| | - Shilun Yan
- College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen, 518000, China; Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Optoelectronic Engineering, Shenzhen University, Shenzhen, 518000, China; School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, 521041, China
| | - Chuyue Zhou
- College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen, 518000, China
| | - Qiong Liu
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518000, China
| | - Hui Zhu
- School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, 521041, China
| | - Zhen Wen
- College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen, 518000, China; School of Food Engineering and Biotechnology, Hanshan Normal University, Chaozhou, 521041, China.
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