Metagenomic sequencing at the epicenter of the Nigeria 2018 Lassa fever outbreak

doi:10.1126/science.aau9343

GSTDTAP > 地球科学

DOI	10.1126/science.aau9343
	Metagenomic sequencing at the epicenter of the Nigeria 2018 Lassa fever outbreak
	Kafetzopoulou, L. E.1,2,3; Pullan, S. T.1,2; Lemey, P.4; Suchard, M. A.5,6,7; Ehichioya, D. U.3,8; Pahlmann, M.3,8; Thielebein, A.3,8; Hinzmann, J.3,8; Oestereich, L.3,8; Wozniak, D. M.3,8; Efthymiadis, K.9; Schachten, D.3; Koenig, F.3; Matjeschk, J.3; Lorenzen, S.3; Lumley, S.1; Ighodalo, Y.10; Adomeh, D. I.10; Olokor, T.10; Omomoh, E.10; Omiunu, R.10; Agbukor, J.10; Ebo, B.10; Aiyepada, J.10; Ebhodaghe, P.10; Osiemi, B.10; Ehikhametalor, S.10; Akhilomen, P.10; Airende, M.10; Esumeh, R.10; Muoebonam, E.10; Giwa, R.10; Ekanem, A.10; Igenegbale, G.10; Odigie, G.10; Okonofua, G.10; Enigbe, R.10; Oyakhilome, J.10; Yerumoh, E. O.10; Odia, I.10; Aire, C.10; Okonofua, M.10; Atafo, R.10; Tobin, E.10; Asogun, D.10,11; Akpede, N.10; Okokhere, P. O.10,11; Rafiu, M. O.10; Iraoyah, K. O.10; Iruolagbe, C. O.10; Akhideno, P.10; Erameh, C.10; Akpede, G.10,11; Isibor, E.10; Naidoo, D.12; Hewson, R.1,2,13,14; Hiscox, J. A.2,15,16; Vipond, R.1,2; Carroll, M. W.1,2; Ihekweazu, C.17; Formenty, P.12; Okogbenin, S.10,11; Ogbaini-Emovon, E.10; Gunther, S.3,8; Duraffour, S.3,8
	2019-01-04
发表期刊	SCIENCE
ISSN	0036-8075
EISSN	1095-9203
出版年	2019
卷号	363 期号:6422 页码:74-+
文章类型	Article
语种	英语
国家	England; Germany; Belgium; USA; Nigeria; Switzerland; Singapore
英文摘要	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.
领域	地球科学 ; 气候变化 ; 资源环境
收录类别	SCI-E
WOS记录号	WOS:000455315800063
WOS关键词	REAL-TIME ; VIRUS ; ZIKA
WOS类目	Multidisciplinary Sciences
WOS研究方向	Science & Technology - Other Topics
引用统计
文献类型	期刊论文
条目标识符	http://119.78.100.173/C666/handle/2XK7JSWQ/200430
专题	地球科学资源环境科学气候变化
作者单位	1.Publ Hlth England, Natl Infect Serv, Porton Down, England; 2.Univ Liverpool, Hlth Protect Res Unit Emerging & Zoonot Infect, NIHR, Liverpool, Merseyside, England; 3.Bernhard Nocht Inst Trop Med, Hamburg, Germany; 4.Univ Leuven, KU Leuven, Rega Inst, Dept Microbiol & Immunol, Leuven, Belgium; 5.Univ Calif Los Angeles, Dept Biomath, Los Angeles, CA USA; 6.Univ Calif Los Angeles, Dept Biostat, Los Angeles, CA USA; 7.Univ Calif Los Angeles, Dept Human Genet, Los Angeles, CA USA; 8.German Ctr Infect Res DZIF, Partner Site Hamburg, Braunschweig, Germany; 9.Vrije Univ Brussel, Artificial Intelligence Lab, Brussels, Belgium; 10.Irrua Specialist Teaching Hosp, Irrua, Nigeria; 11.Ambrose Alli Univ, Coll Med, Fac Clin Sci, Ekpoma, Nigeria; 12.WHO, Geneva, Switzerland; 13.London Sch Hyg & Trop Med, Dept Pathogen Mol Biol, Fac Infect & Trop Dis, London, England; 14.Univ Liverpool Liverpool Sch Trop Med, Fac Clin Sci & Int Publ Hlth, Liverpool, Merseyside, England; 15.ASTAR, Singapore Immunol Network, Singapore, Singapore; 16.Univ Liverpool, Inst Infect & Global Hlth, Liverpool, Merseyside, England; 17.Nigeria Ctr Dis Control, Abuja, Nigeria
推荐引用方式 GB/T 7714	Kafetzopoulou, L. E.,Pullan, S. T.,Lemey, P.,et al. Metagenomic sequencing at the epicenter of the Nigeria 2018 Lassa fever outbreak[J]. SCIENCE,2019,363(6422):74-+.
APA	Kafetzopoulou, L. E..,Pullan, S. T..,Lemey, P..,Suchard, M. A..,Ehichioya, D. U..,...&Duraffour, S..(2019).Metagenomic sequencing at the epicenter of the Nigeria 2018 Lassa fever outbreak.SCIENCE,363(6422),74-+.
MLA	Kafetzopoulou, L. E.,et al."Metagenomic sequencing at the epicenter of the Nigeria 2018 Lassa fever outbreak".SCIENCE 363.6422(2019):74-+.