Core and accessory genomic traits of Vibrio cholerae O1 drive lineage transmission and disease severity
In Bangladesh, Vibrio cholerae lineages are undergoing genomic evolution, with increased virulence and spreading ability. However, our understanding of the genomic determinants influencing lineage transmission and disease severity remains incomplete. Here, we developed a computational framework using machine-learning, genome scale metabolic modelling (GSSM) and 3D structural analysis, to identify V. cholerae genomic traits linked to lineage transmission and disease severity. We analysed in-patients isolates from six Bangladeshi regions (2015-2021), and uncovered accessory genes and core SNPs unique to the most recent dominant lineage, with virulence, motility and bacteriophage resistance functions. We also found a strong correlation between V. cholerae genomic traits and disease severity, with some traits overlapping those driving lineage transmission. GSMM and 3D structure analysis unveiled a complex interplay between transcription regulation, protein interaction and stability, and metabolic networks, associated to lifestyle adaptation, intestinal colonization, acid tolerance and symptom severity. Our findings support advancing therapeutics and targeted interventions to mitigate cholera spread.
Authors
- Tania Dottorini (ORCID: https://orcid.org/0000-0001-7733-906X)
- Ashraful Islam Khan (ORCID: https://orcid.org/0000-0003-3751-1974)
- Nasrin Sultana (ORCID: https://orcid.org/0000-0002-1352-0609)
- Tahmina Shirin (ORCID: https://orcid.org/0000-0002-5061-3783)
- Mohammad Ferdous Rahman Sarker (ORCID: https://orcid.org/0000-0002-7271-5908)
- Alexandre Maciel-Guerra (ORCID: https://orcid.org/0000-0003-1396-9438)
- Kubra Babaarslan
- Zakir Hossain Habib (ORCID: https://orcid.org/0000-0003-2163-3600)
- Mokibul Hassan Afrad (ORCID: https://orcid.org/0000-0002-9627-7877)
- A. S. M. Zisanur Rahman (ORCID: https://orcid.org/0000-0001-7566-1696)
- Michelle Baker (ORCID: https://orcid.org/0000-0002-8926-7689)
- Salim Uzzaman
- Maqsud Hossain (ORCID: https://orcid.org/0000-0001-9794-411X)
- Nicola Senin (ORCID: https://orcid.org/0000-0002-9556-0363)
- Jahidul Alam
- Yasmin Ara Begum (ORCID: https://orcid.org/0009-0007-2703-4832)
- Firdausi Qadri (ORCID: https://orcid.org/0000-0002-8928-9888)
- Abdus Sadique (ORCID: https://orcid.org/0000-0002-2800-7605)
Institutions
- University of Nottingham Ningbo China (CN)
- University of Nottingham (GB)
- North South University (BD)
- International Centre for Diarrhoeal Disease Research (BD)
- University of Perugia (IT)
- Institute of Epidemiology, Disease Control and Research (BD)
- Nottingham College (GB)
Publication Details
- Journal
- Nature Communications
- Published
- 2024-09-23
- DOI
- https://doi.org/10.1038/s41467-024-52238-0
- Citations
- 9
- Primary Topic
- Vibrio bacteria research studies
- Type
- article
- Field-Weighted Citation Impact
- 5.56
Funders
- UK Research and Innovation
- Medical Research Council
- Research England