Bala Kumar Stany, Mishra Shatakshi, Das Anushka, Nag Sagnik, Naidu Rakesh
School of Science, Monash University Malaysia, Jalan Lagoon Selatan, 47500, Bandar Sunway, Selangor, Malaysia.
Jeffrey Cheah School of Medicine and Health Sciences, Monash University Malaysia, Jalan Lagoon Selatan, 47500, Bandar Sunway, Selangor, Malaysia.
Mol Divers. 2025 Apr 18. doi: 10.1007/s11030-025-11188-5.
The gut microbiome plays a crucial role in renal diseases, influencing conditions such as renal cell carcinoma (RCC), acute kidney injuries, and diabetic nephropathy. Recent studies highlight the association between gut microbial metabolites (GMM) and RCC progression. This study employs a computational network pharmacology framework to explore the mechanistic action of gut microbiota-derived metabolites against RCC. GMM were selected from the gutMgene database and analyzed for common targets using DisGeNET, Gene Card, and OMIM. Downstream analysis included gene ontology, KEGG pathway enrichment, metabolite-target-pathway-disease network construction, and protein-protein interaction analysis. Further, key metabolites were evaluated for drug-likeness, ADMET properties, and molecular docking, followed by molecular dynamics simulations (MDS) to assess complex stability. The JUN/AP-1 gene emerged as the prime target, exhibiting the highest binding affinity with Icaritin (- 5.9 kcal/mol), followed by Quercetin and Luteolin. MDS confirmed the stable binding of Icaritin to the active site throughout the simulation. These GMM may influence anticancer activity through distinct regulatory pathways involving the JUN/AP-1 gene, either by inhibiting or modulating its function. These insights establish a basis for further in vitro and in vivo investigations, supporting the development of microbiome-based therapeutic approaches.
肠道微生物群在肾脏疾病中起着至关重要的作用,影响着诸如肾细胞癌(RCC)、急性肾损伤和糖尿病肾病等病症。最近的研究强调了肠道微生物代谢产物(GMM)与RCC进展之间的关联。本研究采用计算网络药理学框架来探索肠道微生物衍生代谢产物对RCC的作用机制。从gutMgene数据库中选择GMM,并使用DisGeNET、基因卡片和在线人类孟德尔遗传数据库(OMIM)分析其共同靶点。下游分析包括基因本体论、KEGG通路富集、代谢产物-靶点-通路-疾病网络构建和蛋白质-蛋白质相互作用分析。此外,对关键代谢产物进行药物相似性、药物代谢动力学性质和分子对接评估,随后进行分子动力学模拟(MDS)以评估复合物稳定性。JUN/AP-1基因成为主要靶点,与淫羊藿素表现出最高的结合亲和力(-5.9千卡/摩尔),其次是槲皮素和木犀草素。MDS证实了淫羊藿素在整个模拟过程中与活性位点的稳定结合。这些GMM可能通过涉及JUN/AP-1基因的不同调节途径影响抗癌活性,要么通过抑制其功能,要么通过调节其功能。这些见解为进一步的体外和体内研究奠定了基础,支持基于微生物群的治疗方法的开发。