PRONAME

PRONAME processes raw Nanopore sequencing data to improve sequence accuracy and produce high-quality consensus sequences optimized for metabarcoding analyses.

Key Features:

• Error Correction: The pipeline implements innovative error-correction strategies and takes advantage of new sequencing chemistry to produce high-quality duplex reads.
• Precompiled Databases: PRONAME includes precompiled databases for complete 16S sequences (Silva138 and Greengenes2) and a newly developed and curated database dedicated to bacterial 16S-ITS-23S operon sequences.
• Custom Database Support: Users can provide a custom database, enabling the analysis of metabarcoding data for any domain of life.
• Nanopore-Specific Processing: The pipeline integrates Nanopore-specific quality filtering, clustering and error correction.
• High Accuracy Output: Evaluations using a mock community have shown that PRONAME delivers consensus sequences demonstrating at least 99.5% accuracy with standard settings and up to 99.7%.

Scientific Applications:

• Metabarcoding Analysis: PRONAME enables genomic analysis of complex multi-species communities through high-precision consensus sequence generation.
• Bacterial Community Profiling: The dedicated bacterial 16S-ITS-23S operon database supports analysis of bacterial taxonomic composition.
• Cross-Domain Metabarcoding: Custom database support allows analysis of metabarcoding data for any domain of life.

Methodology:

The pipeline processes raw Nanopore sequencing data through Nanopore-specific quality filtering, clustering and error correction, including strategies that leverage new sequencing chemistry for duplex read production.