IDEAS home Printed from https://ideas.repec.org/a/nat/nature/v530y2016i7589d10.1038_nature16996.html
   My bibliography  Save this article

Real-time, portable genome sequencing for Ebola surveillance

Author

Listed:
  • Joshua Quick

    (Institute of Microbiology and Infection, University of Birmingham)

  • Nicholas J. Loman

    (Institute of Microbiology and Infection, University of Birmingham)

  • Sophie Duraffour

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Jared T. Simpson

    (Ontario Institute for Cancer Research
    University of Toronto)

  • Ettore Severi

    (European Centre for Disease Prevention and Control (ECDC))

  • Lauren Cowley

    (National Infection Service, Public Health England)

  • Joseph Akoi Bore

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine)

  • Raymond Koundouno

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine)

  • Gytis Dudas

    (Institute of Evolutionary Biology, University of Edinburgh)

  • Amy Mikhail

    (National Infection Service, Public Health England)

  • Nobila Ouédraogo

    (Postgraduate Training for Applied Epidemiology (PAE, German FETP), Robert Koch Institute)

  • Babak Afrough

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    National Infection Service, Public Health England, Porton Down)

  • Amadou Bah

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Swiss Tropical and Public Health Institute)

  • Jonathan H. J. Baum

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Beate Becker-Ziaja

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Jan Peter Boettcher

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Robert Koch Institute)

  • Mar Cabeza-Cabrerizo

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Álvaro Camino-Sánchez

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine)

  • Lisa L. Carter

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    University College London)

  • Juliane Doerrbecker

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Theresa Enkirch

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Paul-Ehrlich-Institut)

  • Isabel García- Dorival

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Institute of Infection and Global Health, University of Liverpool)

  • Nicole Hetzelt

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Robert Koch Institute)

  • Julia Hinzmann

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Robert Koch Institute)

  • Tobias Holm

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Liana Eleni Kafetzopoulou

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Laboratory for Clinical and Epidemiological Virology)

  • Michel Koropogui

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Ministry of Health Guinea)

  • Abigael Kosgey

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Kenya Medical Research Institute)

  • Eeva Kuisma

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    National Infection Service, Public Health England, Porton Down)

  • Christopher H. Logue

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    National Infection Service, Public Health England, Porton Down)

  • Antonio Mazzarelli

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    National Institute for Infectious Diseases L. Spallanzani)

  • Sarah Meisel

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Marc Mertens

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Friedrich-Loeffler-Institute)

  • Janine Michel

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Robert Koch Institute)

  • Didier Ngabo

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    National Infection Service, Public Health England, Porton Down)

  • Katja Nitzsche

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Elisa Pallasch

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Livia Victoria Patrono

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Jasmine Portmann

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Federal Office for Civil Protection, Spiez Laboratory)

  • Johanna Gabriella Repits

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Janssen-Cilag)

  • Natasha Y. Rickett

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Institute of Infection and Global Health, University of Liverpool
    NIHR Health Protection Research Unit in Emerging and Zoonotic Infections, University of Liverpool)

  • Andreas Sachse

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Robert Koch Institute)

  • Katrin Singethan

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Institute of Virology, Technische Universität München)

  • Inês Vitoriano

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    National Infection Service, Public Health England, Porton Down)

  • Rahel L. Yemanaberhan

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Elsa G. Zekeng

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Institute of Infection and Global Health, University of Liverpool
    NIHR Health Protection Research Unit in Emerging and Zoonotic Infections, University of Liverpool)

  • Trina Racine

    (Public Health Agency of Canada)

  • Alexander Bello

    (Public Health Agency of Canada)

  • Amadou Alpha Sall

    (Institut Pasteur Dakar)

  • Ousmane Faye

    (Institut Pasteur Dakar)

  • Oumar Faye

    (Institut Pasteur Dakar)

  • N’Faly Magassouba

    (Laboratoire de Fièvres Hémorragiques de Guinée)

  • Cecelia V. Williams

    (Sandia National Laboratories
    Ratoma Ebola Diagnostic Center)

  • Victoria Amburgey

    (Sandia National Laboratories
    Ratoma Ebola Diagnostic Center)

  • Linda Winona

    (Sandia National Laboratories
    Ratoma Ebola Diagnostic Center)

  • Emily Davis

    (Ratoma Ebola Diagnostic Center
    MRIGlobal, Kansas City)

  • Jon Gerlach

    (Ratoma Ebola Diagnostic Center
    MRIGlobal, Kansas City)

  • Frank Washington

    (Ratoma Ebola Diagnostic Center
    MRIGlobal, Kansas City)

  • Vanessa Monteil

    (Expertise France, Laboratoire K-plan de Forecariah en Guinée)

  • Marine Jourdain

    (Expertise France, Laboratoire K-plan de Forecariah en Guinée)

  • Marion Bererd

    (Expertise France, Laboratoire K-plan de Forecariah en Guinée)

  • Alimou Camara

    (Expertise France, Laboratoire K-plan de Forecariah en Guinée)

  • Hermann Somlare

    (Expertise France, Laboratoire K-plan de Forecariah en Guinée)

  • Abdoulaye Camara

    (Expertise France, Laboratoire K-plan de Forecariah en Guinée)

  • Marianne Gerard

    (Expertise France, Laboratoire K-plan de Forecariah en Guinée)

  • Guillaume Bado

    (Expertise France, Laboratoire K-plan de Forecariah en Guinée)

  • Bernard Baillet

    (Expertise France, Laboratoire K-plan de Forecariah en Guinée)

  • Déborah Delaune

    (Fédération des Laboratoires - HIA
    Laboratoire de Biologie - Centre de Traitement des Soignants)

  • Koumpingnin Yacouba Nebie

    (World Health Organization)

  • Abdoulaye Diarra

    (World Health Organization)

  • Yacouba Savane

    (World Health Organization)

  • Raymond Bernard Pallawo

    (World Health Organization)

  • Giovanna Jaramillo Gutierrez

    (London School of Hygiene and Tropical Medicine)

  • Natacha Milhano

    (European Centre for Disease Prevention and Control (ECDC)
    Norwegian Institute of Public Health, PO Box 4404 Nydalen, 0403 Oslo, Norway)

  • Isabelle Roger

    (World Health Organization)

  • Christopher J. Williams

    (European Centre for Disease Prevention and Control (ECDC)
    Public Health)

  • Facinet Yattara

    (Ministry of Health Guinea)

  • Kuiama Lewandowski

    (National Infection Service, Public Health England, Porton Down)

  • James Taylor

    (Defence Science and Technology Laboratory (Dstl) Porton Down)

  • Phillip Rachwal

    (Defence Science and Technology Laboratory (Dstl) Porton Down)

  • Daniel J. Turner

    (Oxford Nanopore Technologies)

  • Georgios Pollakis

    (Institute of Infection and Global Health, University of Liverpool
    NIHR Health Protection Research Unit in Emerging and Zoonotic Infections, University of Liverpool)

  • Julian A. Hiscox

    (Institute of Infection and Global Health, University of Liverpool
    NIHR Health Protection Research Unit in Emerging and Zoonotic Infections, University of Liverpool)

  • David A. Matthews

    (School of Medical Sciences, University of Bristol)

  • Matthew K. O’ Shea

    (Royal Centre for Defence Medicine)

  • Andrew McD. Johnston

    (Royal Centre for Defence Medicine)

  • Duncan Wilson

    (Royal Centre for Defence Medicine)

  • Emma Hutley

    (Centre of Defence Pathology, Royal Centre for Defence Medicine)

  • Erasmus Smit

    (Queen Elizabeth Hospital)

  • Antonino Di Caro

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    National Institute for Infectious Diseases L. Spallanzani)

  • Roman Wölfel

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bundeswehr Institute of Microbiology)

  • Kilian Stoecker

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bundeswehr Institute of Microbiology)

  • Erna Fleischmann

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bundeswehr Institute of Microbiology)

  • Martin Gabriel

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Simon A. Weller

    (Defence Science and Technology Laboratory (Dstl) Porton Down)

  • Lamine Koivogui

    (Institut National de Santé Publique)

  • Boubacar Diallo

    (World Health Organization)

  • Sakoba Keïta

    (Ministry of Health Guinea)

  • Andrew Rambaut

    (Institute of Evolutionary Biology, University of Edinburgh
    Fogarty International Center, National Institutes of Health, Bethesda
    Centre for Immunology, Infection and Evolution, University of Edinburgh)

  • Pierre Formenty

    (World Health Organization)

  • Stephan Günther

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    Bernhard-Nocht-Institute for Tropical Medicine)

  • Miles W. Carroll

    (The European Mobile Laboratory Consortium, Bernhard-Nocht-Institute for Tropical Medicine
    National Infection Service, Public Health England, Porton Down
    University of Southampton, South General Hospital
    NIHR Health Protection Research Unit in Emerging and Zoonotic Infections)

Abstract

A nanopore DNA sequencer is used for real-time genomic surveillance of the Ebola virus epidemic in the field in Guinea; the authors demonstrate that it is possible to pack a genomic surveillance laboratory in a suitcase and transport it to the field for on-site virus sequencing, generating results within 24 hours of sample collection.

Suggested Citation

  • Joshua Quick & Nicholas J. Loman & Sophie Duraffour & Jared T. Simpson & Ettore Severi & Lauren Cowley & Joseph Akoi Bore & Raymond Koundouno & Gytis Dudas & Amy Mikhail & Nobila Ouédraogo & Babak Afr, 2016. "Real-time, portable genome sequencing for Ebola surveillance," Nature, Nature, vol. 530(7589), pages 228-232, February.
  • Handle: RePEc:nat:nature:v:530:y:2016:i:7589:d:10.1038_nature16996
    DOI: 10.1038/nature16996
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/nature16996
    File Function: Abstract
    Download Restriction: Access to the full text of the articles in this series is restricted.

    File URL: https://libkey.io/10.1038/nature16996?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Gábor Kemenesi & Gábor E. Tóth & Martin Mayora-Neto & Simon Scott & Nigel Temperton & Edward Wright & Elke Mühlberger & Adam J. Hume & Ellen L. Suder & Brigitta Zana & Sándor A. Boldogh & Tamás Görföl, 2022. "Isolation of infectious Lloviu virus from Schreiber’s bats in Hungary," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    2. Yunxi Liu & Joshua Kearney & Medhat Mahmoud & Bryce Kille & Fritz J. Sedlazeck & Todd J. Treangen, 2022. "Rescuing low frequency variants within intra-host viral populations directly from Oxford Nanopore sequencing data," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    3. Mariateresa Cesare & Mulenga Mwenda & Anna E. Jeffreys & Jacob Chirwa & Chris Drakeley & Kammerle Schneider & Brenda Mambwe & Karolina Glanz & Christina Ntalla & Manuela Carrasquilla & Silvia Portugal, 2024. "Flexible and cost-effective genomic surveillance of P. falciparum malaria with targeted nanopore sequencing," Nature Communications, Nature, vol. 15(1), pages 1-16, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:nature:v:530:y:2016:i:7589:d:10.1038_nature16996. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.