MetaMiner

MetaMiner performs large-scale peptidogenomics to identify ribosomally synthesized and post-translationally modified peptides (RiPPs) by searching mass spectrometry spectra against genomic and metagenomic data for natural product discovery.

Key Features:

• Scalable peptidogenomics approach: Integrates genomic and mass spectrometry data to enable large-scale screening for RiPPs.
• GNPS integration: Processes millions of spectra within the Global Natural Products Social (GNPS) molecular networking infrastructure.
• Unknown post-translational modification handling: Detects RiPPs with unknown post-translational modifications.
• Genomic and metagenomic compatibility: Searches spectral data against genomic and metagenomic datasets.
• High-throughput spectral processing: Efficiently processes large-scale mass spectrometry datasets, including millions of spectra.
• Known and novel RiPP identification: Identifies both previously characterized and previously unidentified RiPPs from integrated spectral and genomic evidence.

Scientific Applications:

• Microbiome natural product discovery: Applied to eight diverse datasets, including human microbiomes, lichen microbiomes, and microorganisms isolated from the International Space Station, resulting in identification of 31 known RiPPs and seven previously unidentified RiPPs.
• Expansion of RiPP chemical diversity: Enables detection of RiPPs with unknown post-translational modifications to broaden candidates for antibiotic and bioactive compound discovery.

Methodology:

Performs large-scale searches of mass spectrometry spectral data against genomic and metagenomic datasets using a peptidogenomics approach and integration with the GNPS molecular networking infrastructure.