Publication:
Whole-genome scans provide evidence of adaptive evolution in malawian Plasmodium falciparum isolates

Issued Date

2014-01-01

Resource Type

Article

ISSN

15376613
00221899

DOI

10.1093/infdis/jiu349

Other identifier(s)

2-s2.0-84924468292

Rights

Mahidol University

Rights Holder(s)

SCOPUS

Bibliographic Citation

Journal of Infectious Diseases. Vol.210, No.12 (2014), 1991-2000

Suggested Citation

Harold Ocholla, Mark D. Preston, Mwapatsa Mipando, Anja T.R. Jensen, Susana Campino, Bronwyn Macinnis, Daniel Alcock, Anja Terlouw, Issaka Zongo, Jean Bosco Oudraogo, Abdoulaye A. Djimde, Samuel Assefa, Ogobara K. Doumbo, Steffen Borrmann, Alexis Nzila, Kevin Marsh, Rick M. Fairhurst, Francois Nosten, Tim J.C. Anderson, Dominic P. Kwiatkowski, Alister Craig, Taane G. Clark, Jacqui Montgomery Whole-genome scans provide evidence of adaptive evolution in malawian Plasmodium falciparum isolates. Journal of Infectious Diseases. Vol.210, No.12 (2014), 1991-2000. doi:10.1093/infdis/jiu349 Retrieved from: https://repository.li.mahidol.ac.th/handle/20.500.14594/34876

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Title

Whole-genome scans provide evidence of adaptive evolution in malawian Plasmodium falciparum isolates

Author(s)

Harold Ocholla
 Mark D. Preston
 Mwapatsa Mipando
 Anja T.R. Jensen
 Susana Campino
 Bronwyn Macinnis
 Daniel Alcock
 Anja Terlouw
 Issaka Zongo
 Jean Bosco Oudraogo
 Abdoulaye A. Djimde
 Samuel Assefa
 Ogobara K. Doumbo
 Steffen Borrmann
 Alexis Nzila
 Kevin Marsh
 Rick M. Fairhurst
 Francois Nosten
 Tim J.C. Anderson
 Dominic P. Kwiatkowski
 Alister Craig
 Taane G. Clark
 Jacqui Montgomery

Other Contributor(s)

Malawi-Liverpool-Wellcome Trust Clinical Research Programme
 University of Malawi
 Liverpool School of Tropical Medicine
 London School of Hygiene & Tropical Medicine
 Wellcome Trust Sanger Institute
 Wellcome Trust Centre for Human Genetics
 Kobenhavns Universitet
 Copenhagen University Hospital
 Institut de Recherche en Sciences de la Santé
 University of Bamako
 Universitat Tubingen
 King Fahd University of Petroleum and Minerals
 Wellcome Trust Research Laboratories Nairobi
 National Institute of Allergy and Infectious Diseases
 Texas Biomedical Research Institute
 Nuffield Department of Clinical Medicine
 Mahidol University
 KEMRI/CDC Laboratories
 Pennsylvania State University

Abstract

© The Author 2014. Background: Selection by host immunity and antimalarial drugs has driven extensive adaptive evolution in Plasmodium falciparum and continues to produce ever-changing landscapes of genetic variation. Methods: We performed whole-genome sequencing of 69 P. falciparum isolates from Malawi and used population genetics approaches to investigate genetic diversity and population structure and identify loci under selection. Results. High genetic diversity (π = 2.4 × 10<sup>-4</sup>), moderately high multiplicity of infection (2.7), and low linkage disequilibrium (500-bp) were observed in Chikhwawa District, Malawi, an area of high malaria transmission. Allele frequency-based tests provided evidence of recent population growth in Malawi and detected potential targets of host immunity and candidate vaccine antigens. Comparison of the sequence variation between isolates from Malawi and those from 5 geographically dispersed countries (Kenya, Burkina Faso, Mali, Cambodia, and Thailand) detected population genetic differences between Africa and Asia, within Southeast Asia, and within Africa. Haplotype-based tests of selection to sequence data from all 6 populations identified signals of directional selection at known drugresistance loci, including pfcrt, pfdhps, pfmdr1, and pfgch1. Conclusions: The sequence variations observed at drug-resistance loci reflect differences in each country's historical use of antimalarial drugs and may be useful in formulating local malaria treatment guidelines.

Keyword(s)

Medicine

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URI

https://repository.li.mahidol.ac.th/handle/20.500.14594/34876

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