A QIIME2-based workflow for multi-amplicon 16S rRNA profiling
We present an open-source QIIME2 pipeline for 16S multi-amplicon sequencing. Benchmarked against proprietary software with a mock community, our workflow demonstrates comparable sequencing depth and taxonomic accuracy (F1-Score=0.875). The multi-region approach outperforms single amplicons, validating our pipeline as a robust alternative for semiconductor-based sequencing data.
Authors
- Davide Rizzo (ORCID: https://orcid.org/0000-0003-1830-3731)
- Luca Bergamaschi (ORCID: https://orcid.org/0000-0003-2149-329X)
- Marica Zoppi
- Stefano Chiaravalli (ORCID: https://orcid.org/0000-0002-3044-6578)
- Loris De Cecco (ORCID: https://orcid.org/0000-0002-7066-473X)
- Olga Nigro (ORCID: https://orcid.org/0000-0002-1030-2809)
- Armando G Licata (ORCID: https://orcid.org/0000-0001-5785-5163)
- Maura Massimino (ORCID: https://orcid.org/0000-0002-5506-2001)
- Federico Rossignoli
- Chiara Dossena
Institutions
- Fondazione IRCCS Istituto Nazionale dei Tumori (IT)
Publication Details
- Journal
- Microbiology Resource Announcements
- Published
- 2025-12-09
- DOI
- https://doi.org/10.1128/mra.00836-25
- Primary Topic
- Genomics and Phylogenetic Studies
- Type
- article
- Field-Weighted Citation Impact
- 0.00