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Whole-genome sequencing for an enhanced understanding of genetic variation among South Africans

Author

Listed:
  • Ananyo Choudhury

    (University of the Witwatersrand)

  • Michèle Ramsay

    (University of the Witwatersrand
    University of the Witwatersrand)

  • Scott Hazelhurst

    (University of the Witwatersrand
    University of the Witwatersrand)

  • Shaun Aron

    (University of the Witwatersrand)

  • Soraya Bardien

    (Stellenbosch University)

  • Gerrit Botha

    (University of Cape Town)

  • Emile R. Chimusa

    (University of Cape Town)

  • Alan Christoffels

    (University of the Western Cape)

  • Junaid Gamieldien

    (University of the Western Cape)

  • Mahjoubeh J. Sefid-Dashti

    (University of the Western Cape)

  • Fourie Joubert

    (University of Pretoria)

  • Ayton Meintjes

    (University of Cape Town)

  • Nicola Mulder

    (University of Cape Town)

  • Raj Ramesar

    (University of Cape Town)

  • Jasper Rees

    (Agricultural Research Council)

  • Kathrine Scholtz

    (University of Limpopo)

  • Dhriti Sengupta

    (University of the Witwatersrand)

  • Himla Soodyall

    (University of the Witwatersrand
    University of the Witwatersrand)

  • Philip Venter

    (University of Limpopo)

  • Louise Warnich

    (Stellenbosch University)

  • Michael S. Pepper

    (University of Pretoria)

Abstract

The Southern African Human Genome Programme is a national initiative that aspires to unlock the unique genetic character of southern African populations for a better understanding of human genetic diversity. In this pilot study the Southern African Human Genome Programme characterizes the genomes of 24 individuals (8 Coloured and 16 black southeastern Bantu-speakers) using deep whole-genome sequencing. A total of ~16 million unique variants are identified. Despite the shallow time depth since divergence between the two main southeastern Bantu-speaking groups (Nguni and Sotho-Tswana), principal component analysis and structure analysis reveal significant (p

Suggested Citation

  • Ananyo Choudhury & Michèle Ramsay & Scott Hazelhurst & Shaun Aron & Soraya Bardien & Gerrit Botha & Emile R. Chimusa & Alan Christoffels & Junaid Gamieldien & Mahjoubeh J. Sefid-Dashti & Fourie Jouber, 2017. "Whole-genome sequencing for an enhanced understanding of genetic variation among South Africans," Nature Communications, Nature, vol. 8(1), pages 1-12, December.
    • Handle: RePEc:nat:natcom:v:8:y:2017:i:1:d:10.1038_s41467-017-00663-9
    DOI: 10.1038/s41467-017-00663-9
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