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Analysis of Plasmodium falciparum diversity in natural infections by deep sequencing

Author

Listed:
  • Magnus Manske

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK)

  • Olivo Miotto

    (MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK
    Mahidol-Oxford Tropical Medicine Research Unit, Mahidol University)

  • Susana Campino

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK)

  • Sarah Auburn

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK
    Menzies School of Health Research, Charles Darwin University, Darwin, Northern Territories 0811, Australia)

  • Jacob Almagro-Garcia

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK
    Wellcome Trust Centre for Human Genetics, University of Oxford)

  • Gareth Maslen

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK)

  • Jack O’Brien

    (MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK
    Wellcome Trust Centre for Human Genetics, University of Oxford)

  • Abdoulaye Djimde

    (Malaria Research and Training Centre, Faculty of Medicine, University of Bamako)

  • Ogobara Doumbo

    (Malaria Research and Training Centre, Faculty of Medicine, University of Bamako)

  • Issaka Zongo

    (Institut de Recherche en Sciences de la Santé, Direction Régionale de l’Ouést, Bobo-Dioulasso, Burkina Faso)

  • Jean-Bosco Ouedraogo

    (Institut de Recherche en Sciences de la Santé, Direction Régionale de l’Ouést, Bobo-Dioulasso, Burkina Faso)

  • Pascal Michon

    (Papua New Guinea Institute of Medical Research, Madang 511, Papua New Guinea)

  • Ivo Mueller

    (Papua New Guinea Institute of Medical Research, Madang 511, Papua New Guinea)

  • Peter Siba

    (Papua New Guinea Institute of Medical Research, Madang 511, Papua New Guinea)

  • Alexis Nzila

    (KEMRI/Wellcome Trust Research Program)

  • Steffen Borrmann

    (KEMRI/Wellcome Trust Research Program)

  • Steven M. Kiara

    (KEMRI/Wellcome Trust Research Program)

  • Kevin Marsh

    (KEMRI/Wellcome Trust Research Program)

  • Hongying Jiang

    (National Institute of Allergy and Infectious Diseases, National Institutes of Health)

  • Xin-Zhuan Su

    (National Institute of Allergy and Infectious Diseases, National Institutes of Health)

  • Chanaki Amaratunga

    (National Institute of Allergy and Infectious Diseases, National Institutes of Health)

  • Rick Fairhurst

    (National Institute of Allergy and Infectious Diseases, National Institutes of Health)

  • Duong Socheat

    (Cambodia National Malaria Centre, Phnom Penh, Cambodia)

  • Francois Nosten

    (Mahidol-Oxford Tropical Medicine Research Unit, Mahidol University
    Shoklo Malaria Research Unit, Mae Sot, Tak 63110, Thailand
    Centre for Tropical Medicine, University of Oxford, Oxford OX3 7LJ, UK)

  • Mallika Imwong

    (Faculty of Tropical Medicine, Mahidol University)

  • Nicholas J. White

    (Mahidol-Oxford Tropical Medicine Research Unit, Mahidol University
    Centre for Tropical Medicine, University of Oxford, Oxford OX3 7LJ, UK)

  • Mandy Sanders

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK)

  • Elisa Anastasi

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK)

  • Dan Alcock

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK)

  • Eleanor Drury

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK)

  • Samuel Oyola

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK)

  • Michael A. Quail

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK)

  • Daniel J. Turner

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK)

  • Valentin Ruano-Rubio

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK
    Wellcome Trust Centre for Human Genetics, University of Oxford)

  • Dushyanth Jyothi

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK)

  • Lucas Amenga-Etego

    (MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK
    Wellcome Trust Centre for Human Genetics, University of Oxford
    Navrongo Health Centre)

  • Christina Hubbart

    (Wellcome Trust Centre for Human Genetics, University of Oxford)

  • Anna Jeffreys

    (Wellcome Trust Centre for Human Genetics, University of Oxford)

  • Kate Rowlands

    (Wellcome Trust Centre for Human Genetics, University of Oxford)

  • Colin Sutherland

    (London School of Hygiene and Tropical Medicine, London WC1E 7HT, UK)

  • Cally Roper

    (London School of Hygiene and Tropical Medicine, London WC1E 7HT, UK)

  • Valentina Mangano

    (University of Rome ‘La Sapienza’)

  • David Modiano

    (University of Rome ‘La Sapienza’)

  • John C. Tan

    (The Eck Institute for Global Health, University of Notre Dame, Notre Dame, Indiana 4655, USA)

  • Michael T. Ferdig

    (The Eck Institute for Global Health, University of Notre Dame, Notre Dame, Indiana 4655, USA)

  • Alfred Amambua-Ngwa

    (MRC Laboratories)

  • David J. Conway

    (London School of Hygiene and Tropical Medicine, London WC1E 7HT, UK
    MRC Laboratories)

  • Shannon Takala-Harrison

    (Centre for Vaccine Development, University of Maryland)

  • Christopher V. Plowe

    (Centre for Vaccine Development, University of Maryland)

  • Julian C. Rayner

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK)

  • Kirk A. Rockett

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK
    Wellcome Trust Centre for Human Genetics, University of Oxford)

  • Taane G. Clark

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK
    London School of Hygiene and Tropical Medicine, London WC1E 7HT, UK)

  • Chris I. Newbold

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK
    Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, UK)

  • Matthew Berriman

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK)

  • Bronwyn MacInnis

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK)

  • Dominic P. Kwiatkowski

    (Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    MRC Centre for Genomics and Global Health, University of Oxford, Oxford OX3 7BN, UK
    Wellcome Trust Centre for Human Genetics, University of Oxford)

Abstract

Next-generation sequencing is used here to analyse Plasmodium falciparum genome variation directly from clinical blood samples, as well as cultured isolates, from Africa, Asia and Oceania.

Suggested Citation

  • Magnus Manske & Olivo Miotto & Susana Campino & Sarah Auburn & Jacob Almagro-Garcia & Gareth Maslen & Jack O’Brien & Abdoulaye Djimde & Ogobara Doumbo & Issaka Zongo & Jean-Bosco Ouedraogo & Pascal Mi, 2012. "Analysis of Plasmodium falciparum diversity in natural infections by deep sequencing," Nature, Nature, vol. 487(7407), pages 375-379, July.
    • Handle: RePEc:nat:nature:v:487:y:2012:i:7407:d:10.1038_nature11174
    DOI: 10.1038/nature11174
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    Cited by:

    1. Nanna Brokhattingen & Glória Matambisso & Clemente da Silva & Eric Neubauer Vickers & Arnau Pujol & Henriques Mbeve & Pau Cisteró & Sónia Maculuve & Boaventura Cuna & Cardoso Melembe & Nelo Ndimande &, 2024. "Genomic malaria surveillance of antenatal care users detects reduced transmission following elimination interventions in Mozambique," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    2. Amy Ibrahim & Franziska Mohring & Emilia Manko & Donelly A. Schalkwyk & Jody E. Phelan & Debbie Nolder & Steffen Borrmann & Ayola A. Adegnika & Silvia Maria Santi & Mohammad Shafiul Alam & Dinesh Mond, 2024. "Genome sequencing of Plasmodium malariae identifies continental segregation and mutations associated with reduced pyrimethamine susceptibility," Nature Communications, Nature, vol. 15(1), pages 1-12, December.

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