Integrating comparative genomics and risk classification by assessing virulence, antimicrobial resistance, and plasmid spread in microbial communities with gSpreadComp
The gSpreadComp workflow aims to facilitate hypothesis generation for targeted experimental validations by the identification of concerning resistant hotspots in complex microbial datasets. Our study raises attention to a more thorough study of the critical role of diet in microbial community dynamics and the spread of AMR. This research underscores the importance of integrating genomic data into public health strategies to combat AMR. The gSpreadComp workflow is available at https://github.com/mdsufz/gSpreadComp/.
Authors
- Peter F. Stadler (ORCID: https://orcid.org/0000-0002-5016-5191)
- Ulisses Nunes da Rocha (ORCID: https://orcid.org/0000-0001-6972-6692)
- Michael Schloter (ORCID: https://orcid.org/0000-0003-1671-1125)
- Junya Zhang (ORCID: https://orcid.org/0000-0002-7959-2701)
- Stefanía Magnúsdóttir (ORCID: https://orcid.org/0000-0001-6506-8696)
- Kornelia Smalla (ORCID: https://orcid.org/0000-0001-7653-5560)
- André C. P. L. F. de Carvalho (ORCID: https://orcid.org/0000-0002-4765-6459)
- Jonas Coelho Kasmanas (ORCID: https://orcid.org/0000-0001-6513-5350)
Institutions
- Julius Kühn-Institut (DE)
- Helmholtz Centre for Environmental Research (DE)
- Universidade de São Paulo (BR)
- Chinese Academy of Sciences (CN)
- Center for Environmental Health (US)
- Institute of Mathematics and Computer Science (MD)
- Research Center for Eco-Environmental Sciences (CN)
- Leipzig University (DE)
Publication Details
- Journal
- GigaScience
- Published
- 2025-01-01
- DOI
- https://doi.org/10.1093/gigascience/giaf072
- Citations
- 1
- Primary Topic
- Gut microbiota and health
- Type
- article
- Field-Weighted Citation Impact
- 0.81
Funders
- Alexander von Humboldt-Stiftung
- International Development Research Centre
- Deutsche Forschungsgemeinschaft
- Fundação de Amparo à Pesquisa do Estado de São Paulo
- German Network for Bioinformatics Infrastructure