Nanopore- and AI-empowered microbial viability inference
While the potential of our computational framework's generalizability and applicability to metagenomic studies needs to be assessed in more detail, we here demonstrate for the first time the analysis of freely available nanopore signal data to infer the viability of microorganisms, with many potential applications in environmental, veterinary, and clinical settings.
Authors
- Edward J. Martin (ORCID: https://orcid.org/0009-0000-4180-4900)
- Ela Sauerborn (ORCID: https://orcid.org/0000-0003-1347-0346)
- Yuri Pinheiro Alves de Souza (ORCID: https://orcid.org/0000-0001-9854-6383)
- Katrin Schröder (ORCID: https://orcid.org/0000-0002-3099-526X)
- Michael Schloter (ORCID: https://orcid.org/0000-0003-1671-1125)
- Simone Prospero (ORCID: https://orcid.org/0000-0002-9129-8556)
- Stefan Kesselheim (ORCID: https://orcid.org/0000-0003-0940-5752)
- James M. Ferguson (ORCID: https://orcid.org/0000-0002-6192-6937)
- Michael Biggel (ORCID: https://orcid.org/0000-0002-1337-2132)
- Jana Mittelstrass (ORCID: https://orcid.org/0000-0001-5207-5520)
- Albert Perlas (ORCID: https://orcid.org/0000-0002-4035-2436)
- Nicole Borel (ORCID: https://orcid.org/0000-0002-1556-9262)
- Lara Urban (ORCID: https://orcid.org/0000-0002-5445-9314)
- Hanna Marti (ORCID: https://orcid.org/0000-0002-8398-4708)
- Enrique Rayo (ORCID: https://orcid.org/0000-0002-4497-4339)
- Tim Reska (ORCID: https://orcid.org/0009-0001-9700-5128)
- Sabrina Benassou
- Harika Ürel (ORCID: https://orcid.org/0009-0004-3732-4858)
- Constanza B. Venegas (ORCID: https://orcid.org/0000-0002-8359-8209)
Institutions
- Garvan Institute of Medical Research (AU)
- Forschungszentrum Jülich (DE)
- University of Zurich (CH)
- Swiss Federal Institute for Forest, Snow and Landscape Research (CH)
- Helmholtz Zentrum München (DE)
- Centre for Immunity, Infection and Evolution (GB)
- Institute of Medical Microbiology and Hygiene (DE)
- Leibniz-Institute for Food Systems Biology at the Technical University of Munich (DE)
- Technical University of Munich (DE)
- University of Edinburgh (GB)
Publication Details
- Journal
- GigaScience
- Published
- 2025-01-01
- DOI
- https://doi.org/10.1093/gigascience/giaf100
- Citations
- 4
- Primary Topic
- Genomics and Phylogenetic Studies
- Type
- article
- Field-Weighted Citation Impact
- 3.22
Funders
- Universität Zürich
- Vontobel-Stiftung
- Biotechnology and Biological Sciences Research Council