Metabolite Production and Extraction of Indole Compound From the Tomato Endophyte sp. VITGV100.

Endophytic actinomycetes, particularly species, have gained significant attention due to their potential to produce novel bioactive compounds. In this study, we isolated and characterized an endophytic sp. VITGV100 from the tomato plant (), employing the direct streak method and whole-genome sequencing. A genome analysis was done to uncover its biosynthetic potential and identify indole-type compounds. The strain's secondary metabolite production was evaluated through GC-MS analysis, and its antimicrobial activity was tested against selected human pathogenic bacteria. Our protocol outlines a comprehensive approach, describing the isolation and extraction of metabolites and genome mining for indole-type compounds. This isolate has potential pharmaceutical applications, accelerating the discovery of novel indole-type bioactive compounds. Key features • A systematic approach for isolating sp. VITGV100 from , including surface sterilization and selective culturing on ISP2 medium. • Whole-genome sequencing and annotation: High-throughput Illumina sequencing followed by genome assembly, annotation, and functional characterization to explore biosynthetic potential and metabolic pathways. • Secondary metabolite profiling and bioactivity screening: GC-MS-based identification of bioactive metabolites, followed by antibacterial activity assessment against human pathogens using well-diffusion assays. • Identification of biosynthetic gene clusters (BGCs) using antiSMASH 6.0.