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Introduction <p>The genus <i>Micromonospora</i> is a prolific producer of specialized metabolites with pharmacological and agronomic relevance. Natural products derived from the genus <i>Micromonospora</i> have a distinctive chemical diversity and enormous therapeutic potential, thus represent a potential source for drugs and drug leads.</p> Objective <p>To explore the biosynthetic potential of four <i>Micromonospora</i> strains isolated from cold desert of NW Himalayas through genome mining and to correlate predicted biosynthetic gene clusters with chemical features detected by untargeted LC–HRMS metabolomics.</p> Method <p>High-quality genomes were annotated for BGCs and matched against untargeted LC–HRMS features (peak picking, alignment, and annotation to chemical classes). Each isolate was grown in triplicate, and fermented broth was pooled for further metabolomic studies.</p> Results <p>By integrating genomic and metabolomic approaches, specialized biosynthetic gene clusters and strain-based putative metabolite classes were identified. LRS1 showed elevated xanthines (RiPP/siderophore), LRS3 had phenolic glycosides (hybrid PKS/NRPS), LRS4 showed 70-fold hydroxycinnamate enrichment (Type II PKS), and LRS5 displayed p-benzoquinone enrichment (Type III PKS). The metabolite profile of each strain aligned with its predicted biosynthetic gene cluster composition.</p> Conclusion <p>Under a single growth regime, each <i>Micromonospora</i> strain exhibits a distinct metabolomic profile. This metabologenomics workflow can be further explored to isolate specialized metabolites with potential therapeutic and agricultural value.</p>

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Secondary metabolite profiling of rare Micromonospora spp. from cold desert of NW Himalayas via multi-omics analysis

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2026年7月1日

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  • Neha Sharma,
  • Devtulya Chander,
  • Nawaz Hussain,
  • Asha Chaubey

摘要

Introduction

The genus Micromonospora is a prolific producer of specialized metabolites with pharmacological and agronomic relevance. Natural products derived from the genus Micromonospora have a distinctive chemical diversity and enormous therapeutic potential, thus represent a potential source for drugs and drug leads.

Objective

To explore the biosynthetic potential of four Micromonospora strains isolated from cold desert of NW Himalayas through genome mining and to correlate predicted biosynthetic gene clusters with chemical features detected by untargeted LC–HRMS metabolomics.

Method

High-quality genomes were annotated for BGCs and matched against untargeted LC–HRMS features (peak picking, alignment, and annotation to chemical classes). Each isolate was grown in triplicate, and fermented broth was pooled for further metabolomic studies.

Results

By integrating genomic and metabolomic approaches, specialized biosynthetic gene clusters and strain-based putative metabolite classes were identified. LRS1 showed elevated xanthines (RiPP/siderophore), LRS3 had phenolic glycosides (hybrid PKS/NRPS), LRS4 showed 70-fold hydroxycinnamate enrichment (Type II PKS), and LRS5 displayed p-benzoquinone enrichment (Type III PKS). The metabolite profile of each strain aligned with its predicted biosynthetic gene cluster composition.

Conclusion

Under a single growth regime, each Micromonospora strain exhibits a distinct metabolomic profile. This metabologenomics workflow can be further explored to isolate specialized metabolites with potential therapeutic and agricultural value.