Investigating the etiologies of non-malarial febrile illness in Senegal using metagenomic sequencing

Zoë C. Levine, Aita Sene, Winnie Mkandawire, Awa B. Deme, Tolla Ndiaye, Mouhamad Sy, Amy Gaye, Younouss Diedhiou, Amadou M. Mbaye, Ibrahima M. Ndiaye, Jules Gomis, Médoune Ndiop, Doudou Sene, Marietou Faye Paye, Bronwyn L. MacInnis, Stephen F. Schaffner, Daniel J. Park, Aida S. Badiane, Andres Colubri, Mouhamadou Ndiaye, Ngayo Sy, Pardis C. Sabeti (), Daouda Ndiaye () and Katherine J. Siddle ()
Additional contact information
Zoë C. Levine: Broad Institute of Harvard and MIT
Aita Sene: Cheikh Anta Diop University Dakar
Winnie Mkandawire: Broad Institute of Harvard and MIT
Awa B. Deme: Centre International de Recherche et de Formation en Génomique Appliquée et de la Surveillance Sanitaire
Tolla Ndiaye: Cheikh Anta Diop University Dakar
Mouhamad Sy: Cheikh Anta Diop University Dakar
Amy Gaye: Cheikh Anta Diop University Dakar
Younouss Diedhiou: Cheikh Anta Diop University Dakar
Amadou M. Mbaye: Cheikh Anta Diop University Dakar
Ibrahima M. Ndiaye: Cheikh Anta Diop University Dakar
Jules Gomis: Cheikh Anta Diop University Dakar
Médoune Ndiop: Programme National de lutte contre le Paludisme, Ministère de la Santé
Doudou Sene: Programme National de lutte contre le Paludisme, Ministère de la Santé
Marietou Faye Paye: Broad Institute of Harvard and MIT
Bronwyn L. MacInnis: Broad Institute of Harvard and MIT
Stephen F. Schaffner: Broad Institute of Harvard and MIT
Daniel J. Park: Broad Institute of Harvard and MIT
Aida S. Badiane: Cheikh Anta Diop University Dakar
Andres Colubri: Broad Institute of Harvard and MIT
Mouhamadou Ndiaye: Cheikh Anta Diop University Dakar
Ngayo Sy: Service de Lutte Anti Parasitaire
Pardis C. Sabeti: Broad Institute of Harvard and MIT
Daouda Ndiaye: Cheikh Anta Diop University Dakar
Katherine J. Siddle: Broad Institute of Harvard and MIT

Nature Communications, 2024, vol. 15, issue 1, 1-13

Abstract: Abstract The worldwide decline in malaria incidence is revealing the extensive burden of non-malarial febrile illness (NMFI), which remains poorly understood and difficult to diagnose. To characterize NMFI in Senegal, we collected venous blood and clinical metadata in a cross-sectional study of febrile patients and healthy controls in a low malaria burden area. Using 16S and untargeted sequencing, we detected viral, bacterial, or eukaryotic pathogens in 23% (38/163) of NMFI cases. Bacteria were the most common, with relapsing fever Borrelia and spotted fever Rickettsia found in 15.5% and 3.8% of cases, respectively. Four viral pathogens were found in a total of 7 febrile cases (3.5%). Sequencing also detected undiagnosed Plasmodium, including one putative P. ovale infection. We developed a logistic regression model that can distinguish Borrelia from NMFIs with similar presentation based on symptoms and vital signs (F1 score: 0.823). These results highlight the challenge and importance of improved diagnostics, especially for Borrelia, to support diagnosis and surveillance.

Date: 2024
References: View references in EconPapers View complete reference list from CitEc
Citations:

Downloads: (external link)
https://www.nature.com/articles/s41467-024-44800-7 Abstract (text/html)

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-44800-7

Ordering information: This journal article can be ordered from
https://www.nature.com/ncomms/

DOI: 10.1038/s41467-024-44800-7

Access Statistics for this article

Nature Communications is currently edited by Nathalie Le Bot, Enda Bergin and Fiona Gillespie

More articles in Nature Communications from Nature
Bibliographic data for series maintained by Sonal Shukla () and Springer Nature Abstracting and Indexing ().