1. Clinical Sequencing Uncovers Origins and Evolution of Lassa Virus
- Author
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Adrianne D. Gladden, Christian T. Happi, Sylvanus Okogbenin, Simbirie Jalloh, Kandeh Karbo, Joshua Z. Levin, Megan L. Heinrich, Andreas Gnirke, Zach Bjornson, Philomena E. Ehiane, Ridhi Tariyal, Sidiki Saffa, Mahan Nekoui, Peter O. Okokhere, Kathleen Rubins, B. Jesse Shapiro, Aaron E. Lin, Lansana Kanneh, Stephen F. Schaffner, Lisa E. Hensley, Augustine Goba, Michael Fitzgerald, Donald S. Grant, Nisha Broodie, Omowunmi Omoniwa, Marjan Akdag, Elizabeth M. Ryan, Eric Phelan, Onikepe A. Folarin, George O. Akpede, S. Humarr Khan, Niall J. Lennon, Daniel G. Bausch, Hilary K. Finucane, Barbara Tazon-Vega, James Qu, Stephan Günther, Ikponmwonsa Odia, Sarah Winnicki, James Bochicchio, Danielle C Levy, Rachel Sealfon, Mohammed Fullah, Kristian G. Andersen, Danny A. Milner, Mambu Momoh, Mbalu Fonnie, Eleina M. England, Christian B. Matranga, Amanda K. Lukens, Lina M. Moses, Eric S. Lander, Megan M. Rowland, Andrea T. Ireland, Stephen K. Gire, Pardis C. Sabeti, Aaron M. Berlin, Shervin Tabrizi, Henry Akpan, Luis M. Branco, Joseph B. McCormick, Michael Gbakie, Bruce W. Birren, Robert F. Garry, Joseph J. Vitti, John S. Schieffelin, Matthew Stremlau, Ryan Tewhey, Richard Fonnie, Caryn McCowan, Danny Asogun, Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory, and Sealfon, Rachel Sima
- Subjects
Disease reservoir ,viruses ,Nigeria ,Genome, Viral ,Biology ,medicine.disease_cause ,Genome ,General Biochemistry, Genetics and Molecular Biology ,Viral Proteins ,Lassa Fever ,Zoonoses ,Case fatality rate ,medicine ,Animals ,Humans ,Lassa fever ,Lassa virus ,Disease Reservoirs ,Glycoproteins ,Ebolavirus ,Ebola virus ,Biochemistry, Genetics and Molecular Biology(all) ,Zoonosis ,Genetic Variation ,Hemorrhagic Fever, Ebola ,medicine.disease ,Virology ,Biological Evolution ,Africa, Western ,Mutation ,RNA, Viral ,Murinae - Abstract
The 2013–2015 West African epidemic of Ebola virus disease (EVD) reminds us of how little is known about biosafety level 4 viruses. Like Ebola virus, Lassa virus (LASV) can cause hemorrhagic fever with high case fatality rates. We generated a genomic catalog of almost 200 LASV sequences from clinical and rodent reservoir samples. We show that whereas the 2013–2015 EVD epidemic is fueled by human-to-human transmissions, LASV infections mainly result from reservoir-to-human infections. We elucidated the spread of LASV across West Africa and show that this migration was accompanied by changes in LASV genome abundance, fatality rates, codon adaptation, and translational efficiency. By investigating intrahost evolution, we found that mutations accumulate in epitopes of viral surface proteins, suggesting selection for immune escape. This catalog will serve as a foundation for the development of vaccines and diagnostics., National Institutes of Health (U.S.), United States. Dept. of Health and Human Services (Award 1DP2OD006514-01), National Institute of Allergy and Infectious Diseases (U.S.) (Contracts HHSN272200900049C, HHSN272201000022C, HHSN272200900018C, and U19AI110818), United States Army Medical Acquisition Activity (Grant W81XWH-10-1-0098), David & Lucile Packard Foundation (Fellowship for Science and Engineering), Broad Institute of MIT and Harvard (SPARC Award), German Research Foundation (Grant GU 883/1-1), National Science Foundation (U.S.). Graduate Research Fellowship Program
- Published
- 2015