期刊
SCIENCE
卷 363, 期 6422, 页码 74-+出版社
AMER ASSOC ADVANCEMENT SCIENCE
DOI: 10.1126/science.aau9343
关键词
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资金
- National Institute for Health Research Health Protection Research Unit (NIHR HPRU) in Emerging and Zoonotic Infections at the University of Liverpool
- Public Health England (PHE)
- Liverpool School of Tropical Medicine
- European Research Council under the European Union's Horizon 2020 research and innovation program [725422-ReservoirDOCS]
- Wellcome Trust Collaborative Award [206298/Z/17/Z]
- Special Research Fund, KU Leuven (Bijzonder Onderzoeksfonds, KU Leuven) [OT/14/115]
- Research Foundation-Flanders (Fonds voor Wetenschappelijk Onderzoek - Vlaanderen) [G066215N, G0D5117N, G0B9317N]
- National Science Foundation [DMS 1264153]
- German Federal Ministry of Health through WHO Collaborating Centre for Arboviruses and Hemorrhagic Fever Viruses at the Bernhard Nocht Institute for Tropical Medicine [ZMV I 1-2517WHO005, ZMV I 1-2517WHO010]
- German Federal Ministry of Health through Global Health Protection Program [ZMVI1-2517-GHP-704]
- German Federal Ministry for Economic Cooperation and Development through the Rapid Deployment Expert Group to Combat Threats (SEEG)
- European Union's Horizon 2020 research and innovation program [653316-EVAg]
- German Research Foundation (DFG) [GU 883/4-1]
- Alexander von Humboldt Foundation
- Kirmser Foundation
- Oxford Nanopore
The 2018 Nigerian Lassa fever season saw the largest ever recorded upsurge of cases, raising concerns over the emergence of a strain with increased transmission rate. To understand the molecular epidemiology of this upsurge, we performed, for the first time at the epicenter of an unfolding outbreak, metagenomic nanopore sequencing directly from patient samples, an approach dictated by the highly variable genome of the target pathogen. Genomic data and phylogenetic reconstructions were communicated immediately to Nigerian authorities and the World Health Organization to inform the public health response. Real-time analysis of 36 genomes and subsequent confirmation using all 120 samples sequenced in the country of origin revealed extensive diversity and phylogenetic intermingling with strains from previous years, suggesting independent zoonotic transmission events and thus allaying concerns of an emergent strain or extensive human-to-human transmission.
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