2018 Ebola virus disease outbreak in Équateur Province, Democratic Republic of the Congo: a retrospective genomic characterisation

The Lancet Infectious Diseases

Volumn 19, Issue 6, 2019, Pages 641-647

  Mbala Kingebeni, Placide ^a,b,c   Pratt, Catherine B ^d,e   Wiley, Michael R ^d,e   Diagne, Moussa M ^g   Makiala Mandanda, Sheila ^a,c   Aziza, Amuri ^a   Di Paola, Nicholas ^d   Chitty, Joseph A ^d   Diop, Mamadou ^g   Ayouba, Ahidjo ^b   Vidal, Nicole ^b   Faye, Ousmane ^g   Faye, Oumar ^g   Karhemere, Stormy ^a   Aruna, Aaron ^h   Nsio, Justus ^h   Mulangu, Felix ^h   Mukadi, Daniel ^c   Mukadi, Patrick ^a   Kombe, John ^h   Mulumba, Anastasie ⁱ   Duraffour, Sophie ^i,j   Likofata, Jacques ^k   Pukuta, Elisabeth ^a   Caviness, Katie ^d   Bartlett, Maggie L ^d,f   Gonzalez, Jeanette ^d   Minogue, Timothy ^d   Sozhamannan, Shanmuga ^l,m   Gross, Stephen M ⁿ   Schroth, Gary P ⁿ   Kuhn, Jens H ^o   Donaldson, Eric F ^p   Delaporte, Eric ^b   Sanchez Lockhart, Mariano ^d,f   Peeters, Martine ^b   Muyembe Tamfum, Jean Jacques ^a,c   Alpha Sall, Amadou ^g   Palacios, Gustavo ^d   Ahuka Mundeke, Steve ^a,c   more..

^a Institut National de Recherche Biomédicale   (Democratic Republic Congo)

^b UNIVERSITÉ DE MONTPELLIER   (France)

^c Cliniques Universitaires de Kinshasa   (Democratic Republic Congo)

^d UNITED STATES ARMY MEDICAL RESEARCH INSTITUTE OF INFECTIOUS DISEASES   (United States)

^e UNIVERSITY OF NEBRASKA MEDICAL CENTER   (United States)

^f UNIVERSITY OF NEBRASKA MEDICAL CENTER   (United States)

^g INSTITUT PASTEUR DE DAKAR   (Senegal)

^h Ministere de la Sante Publique   (Democratic Republic Congo)

ⁱ WORLD HEALTH ORGANIZATION   (Switzerland)

^j BERNHARD NOCHT INSTITUTE FOR TROPICAL MEDICINE   (Germany)

^k Laboratoire Provinciale   (Democratic Republic Congo)

^l Radiological and Nuclear Defense Joint Project Management Office for Guardian   (United States)

^m LMI   (United States)

ⁿ ILLUMINA INC   (United States)

^o NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES   (United States)

^p CENTER FOR DRUG EVALUATION AND RESEARCH   (United States)

more..

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; GLYCOPROTEIN; MONOCLONAL ANTIBODY; ANTIVIRUS AGENT; EBOLA VACCINE;

ARTICLE; COMPUTER MODEL; DEMOCRATIC REPUBLIC CONGO; EBOLA HEMORRHAGIC FEVER; EPIDEMIC; FLOW CYTOMETRY; HUMAN; PHYLOGENETIC TREE; PHYLOGENY; PRIORITY JOURNAL; RETROSPECTIVE STUDY; VIRUS GENOME; EBOLAVIRUS; GENETICS; GENOMICS;

ANTIVIRAL AGENTS; DEMOCRATIC REPUBLIC OF THE CONGO; DISEASE OUTBREAKS; EBOLA VACCINES; EBOLAVIRUS; GENOMICS; HEMORRHAGIC FEVER, EBOLA; HUMANS; RETROSPECTIVE STUDIES;

EID: 85065874195     PISSN: 14733099     EISSN: 14744457     Source Type: Journal    
DOI: 10.1016/S1473-3099(19)30124-0     Document Type: Article

References (29)

1. Ebola Outbreak Epidemiology Team. Outbreak of Ebola virus disease in the Democratic Republic of the Congo, April–May, 2018: an epidemiological study. Lancet 392 (2018), 213–221.
2. WHO. Ebola virus disease. Democratic Republic of the Congo. External situation report 17: declaration of end of Ebola virus disease outbreak. https://reliefweb.int/report/democratic-republic-congo/democratic-republic-congo-ebola-virus-disease-external-situation-14, 2018. (Accessed 2 April 2019)
3. Kuhn, JH, Ebolavirus and marburgvirus infections. Jameson, JL, Fauci, AS, Kasper, DL, Hauser, SL, Longo, DL, Loscalzo, J, (eds.)Harrison's principles of internal medicine, 20th edn., 2018, McGraw-Hill Education, Columbus, 1509–1515.
4. Mbala-Kingebeni, P, Aziza, A, Di Paola, N, Medical countermeasures during the 2018 Ebola virus disease outbreak in the Nord Kivu and Ituri provinces of the Democratic Republic of the Congo: a rapid genomic assessment. Lancet Infect Dis, 2019 published online April 15. http://dx.doi.org/10.1016/S1473-3099(19)30118-5.
5. Mbala Kingebeni, P, Villabona-Arenas, CJ, Vidal, N, et al. Rapid confirmation of the Zaire Ebola Virus in the outbreak of the Equateur province in the Democratic Republic of Congo: implications for public health interventions. Clin Infect Dis 68 (2019), 330–333.
6. Pinsky, BA, Sahoo, MK, Sandlund, J, et al. Analytical performance characteristics of the Cepheid GeneXpert Ebola assay for the detection of Ebola virus. PLoS One, 10, 2015, e0142216.
7. Mate, SE, Kugelman, JR, Nyenswah, TG, et al. Molecular evidence of sexual transmission of Ebola virus. N Engl J Med 373 (2015), 2448–2454.
8. Katoh, K, Standley, DM, MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30 (2013), 772–780.
9. Stamatakis, A, RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30 (2014), 1312–1313.
10. Rambaut, A, Lam, TT, Max Carvalho, L, Pybus, OG, Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen). Virus Evol, 2, 2016, vew007.
11. Drummond, AJ, Suchard, MA, Xie, D, Rambaut, A, Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol Biol Evol 29 (2012), 1969–1973.
12. Gire, SK, Goba, A, Andersen, KG, et al. Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak. Science 345 (2014), 1369–1372.
13. Park, DJ, Dudas, G, Wohl, S, et al. Ebola virus epidemiology, transmission, and evolution during seven months in Sierra Leone. Cell 161 (2015), 1516–1526.
14. Pybus, OG, Rambaut, A, Evolutionary analysis of the dynamics of viral infectious disease. Nat Rev Genet 10 (2009), 540–550.
15. de Wit, E, Rosenke, K, Fischer, RJ, et al. Ebola laboratory response at the eternal love winning Africa campus, Monrovia, Liberia, 2014–2015. J Infect Dis 214:suppl 3 (2016), S169–S176.
16. Weidmann, M, Muhlberger, E, Hufert, FT, Rapid detection protocol for filoviruses. J Clin Virol 30 (2004), 94–99.
17. Davidson, E, Bryan, C, Fong, RH, et al. Mechanism of binding to Ebola virus glycoprotein by the ZMapp, ZMAb, and MB-003 cocktail antibodies. J Virol 89 (2015), 10982–10992.
18. Murin, CD, Fusco, ML, Bornholdt, ZA, et al. Structures of protective antibodies reveal sites of vulnerability on Ebola virus. Proc Natl Acad Sci USA 111 (2014), 17182–17187.
19. Kuhn, JH, Guide to the correct use of filoviral nomenclature. Curr Top Microbiol Immunol 411 (2017), 447–460.
20. Carroll, SA, Towner, JS, Sealy, TK, et al. Molecular evolution of viruses of the family Filoviridae based on 97 whole-genome sequences. J Virol 87 (2013), 2608–2616.
21. Dudas, G, Rambaut, A, Phylogenetic analysis of Guinea 2014 EBOV Ebolavirus outbreak. PLoS Curr, 6, 2014.
22. Kugelman, JR, Wiley, MR, Mate, S, et al. Monitoring of Ebola virus Makona evolution through establishment of advanced genomic capability in Liberia. Emerg Infect Dis 21 (2015), 1135–1143.
23. Quick, J, Loman, NJ, Duraffour, S, et al. Real-time, portable genome sequencing for Ebola surveillance. Nature 530 (2016), 228–232.
24. Smits, SL, Pas, SD, Reusken, CB, et al. Genotypic anomaly in Ebola virus strains circulating in Magazine Wharf area, Freetown, Sierra Leone, 2015. Euro Surveill, 20, 2015.
25. Blackley, DJ, Wiley, MR, Ladner, JT, et al. Reduced evolutionary rate in reemerged Ebola virus transmission chains. Sci Adv, 2, 2016, e1600378.
26. Whitmer, SLM, Ladner, JT, Wiley, MR, et al. Active Ebola virus replication and heterogeneous evolutionary rates in EVD survivors. Cell Rep 22 (2018), 1159–1168.
27. Lam, TT, Zhu, H, Chong, YL, Holmes, EC, Guan, Y, Puzzling origins of the Ebola outbreak in the Democratic Republic of the Congo, 2014. J Virol 89 (2015), 10130–10132.
28. Holmes, EC, Dudas, G, Rambaut, A, Andersen, KG, The evolution of Ebola virus: insights from the 2013–2016 epidemic. Nature 538 (2016), 193–200.
29. Lefever, S, Pattyn, F, Hellemans, J, Vandesompele, J, Single-nucleotide polymorphisms and other mismatches reduce performance of quantitative PCR assays. Clin Chem 59 (2013), 1470–1480.