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Ebola Virus Epidemiology, Transmission, and Evolution during Seven Months in Sierra Leone

Daniel J. Park,Gytis Dudas,Shirlee Wohl,Augustine Goba,Shannon Whitmer,Kristian G. Andersen,Rachel Sealfon,Jason T. Ladner,Jeffrey R. Kugelman,Christian B. Matranga,S Winnicki,James Qu,Stephen K. Gire,Adrianne Gladden-Young,Simbirie Jalloh,Dolo Nosamiefan,Nathan L. Yozwiak,Lina M. Moses,Pan Jiang,Aaron E. Lin,Stephen F. Schaffner,Brian H. Bird,Jonathan S. Towner,Mambu Mamoh,Michael Gbakie,Lansana Kanneh,David Kargbo,James L.B. Massally,Fatima K. Kamara,Edwin Konuwa,Josephine Sellu,Abdul A. Jalloh,Ibrahim Mustapha,Momoh Foday,Mohamed Yillah,Bobbie R. Erickson,Tara K. Sealy,Dianna M. Blau,Christopher D. Paddock,Aaron C. Brault,Brian R. Amman,Alison Jane Basile,Scott W. Bearden,Jessica A. Belser,Éric Bergeron,Shelley Campbell,Ayan K. Chakrabarti,Kimberly A. Dodd,Mike Flint,Aridth Gibbons,Christin H. Goodman,John D. Klena,Laura K. McMullan,Laura Morgan,Brandy J. Russell,Johanna S. Salzer,Angela J. Sanchez,David Wang,Irwin Jungreis,Christopher H. Tomkins-Tinch,Andrey Kislyuk,Michael Lin,Sinéad B. Chapman,Bronwyn MacInnis,Ashley Matthews,James Bochicchio,Lisa E. Hensley,Jens H. Kuhn,Chad Nusbaum,John S. Schieffelin,Bruce W. Birren,Marc Forget,Stuart T. Nichol,Gustavo Palacios,Daouda Ndiaye,Christian T. Happi,Sahr M. Gevao,Mohamed Vandi,Brima Kargbo,Edward C. Holmes,Trevor Bedford,Andreas Gnirke,Ute Ströher,Andrew Rambaut,Robert F. Garry,Pardis C. Sabeti

Sierra leone

Ebola virus

Biology

2015

The 2013-2015 Ebola virus disease (EVD) epidemic is caused by the Makona variant of Ebola virus (EBOV). Early in the epidemic, genome sequencing provided insights into virus evolution and transmission and offered important information for outbreak response. Here, we analyze sequences from 232 patients sampled over 7 months in Sierra Leone, along with 86 previously released genomes from earlier in the epidemic. We confirm sustained human-to-human transmission within Sierra Leone and find no evidence for import or export of EBOV across national borders after its initial introduction. Using high-depth replicate sequencing, we observe both host-to-host transmission and recurrent emergence of intrahost genetic variants. We trace the increasing impact of purifying selection in suppressing the accumulation of nonsynonymous mutations over time. Finally, we note changes in the mucin-like domain of EBOV glycoprotein that merit further investigation. These findings clarify the movement of EBOV within the region and describe viral evolution during prolonged human-to-human transmission.

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“Ebola Virus Epidemiology, Transmission, and Evolution during Seven Months in Sierra Leone” is a paper by Daniel J. Park Gytis Dudas Shirlee Wohl Augustine Goba Shannon Whitmer Kristian G. Andersen Rachel Sealfon Jason T. Ladner Jeffrey R. Kugelman Christian B. Matranga S Winnicki James Qu Stephen K. Gire Adrianne Gladden-Young Simbirie Jalloh Dolo Nosamiefan Nathan L. Yozwiak Lina M. Moses Pan Jiang Aaron E. Lin Stephen F. Schaffner Brian H. Bird Jonathan S. Towner Mambu Mamoh Michael Gbakie Lansana Kanneh David Kargbo James L.B. Massally Fatima K. Kamara Edwin Konuwa Josephine Sellu Abdul A. Jalloh Ibrahim Mustapha Momoh Foday Mohamed Yillah Bobbie R. Erickson Tara K. Sealy Dianna M. Blau Christopher D. Paddock Aaron C. Brault Brian R. Amman Alison Jane Basile Scott W. Bearden Jessica A. Belser Éric Bergeron Shelley Campbell Ayan K. Chakrabarti Kimberly A. Dodd Mike Flint Aridth Gibbons Christin H. Goodman John D. Klena Laura K. McMullan Laura Morgan Brandy J. Russell Johanna S. Salzer Angela J. Sanchez David Wang Irwin Jungreis Christopher H. Tomkins-Tinch Andrey Kislyuk Michael Lin Sinéad B. Chapman Bronwyn MacInnis Ashley Matthews James Bochicchio Lisa E. Hensley Jens H. Kuhn Chad Nusbaum John S. Schieffelin Bruce W. Birren Marc Forget Stuart T. Nichol Gustavo Palacios Daouda Ndiaye Christian T. Happi Sahr M. Gevao Mohamed Vandi Brima Kargbo Edward C. Holmes Trevor Bedford Andreas Gnirke Ute Ströher Andrew Rambaut Robert F. Garry Pardis C. Sabeti published in 2015. It has an Open Access status of “hybrid”. You can read and download a PDF Full Text of this paper here.