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Title: Genomic analysis of local variation and recent evolution in Plasmodium vivax
Authors: Richard D. Pearson
Roberto Amato
Sarah Auburn
Olivo Miotto
Jacob Almagro-Garcia
Chanaki Amaratunga
Seila Suon
Sivanna Mao
Rintis Noviyanti
Hidayat Trimarsanto
Jutta Marfurt
Nicholas M. Anstey
Timothy William
MacIej F. Boni
Christiane Dolecek
Hien Tinh Tran
Nicholas J. White
Pascal Michon
Peter Siba
Livingstone Tavul
Gabrielle Harrison
Alyssa Barry
Ivo Mueller
Marcelo U. Ferreira
Nadira Karunaweera
Milijaona Randrianarivelojosia
Qi Gao
Christina Hubbart
Lee Hart
Ben Jeffery
Eleanor Drury
Daniel Mead
Mihir Kekre
Susana Campino
Magnus Manske
Victoria J. Cornelius
Bronwyn MacInnis
Kirk A. Rockett
Alistair Miles
Julian C. Rayner
Rick M. Fairhurst
Francois Nosten
Ric N. Price
Dominic P. Kwiatkowski
Wellcome Trust Sanger Institute
Wellcome Trust Centre for Human Genetics
Menzies School of Health Research
Mahidol University
National Institute of Allergy and Infectious Diseases
National Centre for Parasitology, Entomology and Malaria Control
Sampov Meas Referral Hospital
Eijkman Institute for Molecular Biology
Queen Elizabeth Hospital
Oxford University Clinical Research Unit
Papua New Guinea Institute of Medical Research
Divine Word University
Walter and Eliza Hall Institute of Medical Research
University of Melbourne
Universidade de Sao Paulo - USP
University of Colombo Faculty of Medicine
Institut Pasteur de Madagascar
Ministry of Health of People's Republic of China
Nuffield Department of Clinical Medicine
Keywords: Biochemistry, Genetics and Molecular Biology
Issue Date: 1-Aug-2016
Citation: Nature Genetics. Vol.48, No.8 (2016), 959-964
Abstract: © 2016 Nature America, Inc. All rights reserved. The widespread distribution and relapsing nature of Plasmodium vivax infection present major challenges for the elimination of malaria. To characterize the genetic diversity of this parasite in individual infections and across the population, we performed deep genome sequencing of >200 clinical samples collected across the Asia-Pacific region and analyzed data on >300,000 SNPs and nine regions of the genome with large copy number variations. Individual infections showed complex patterns of genetic structure, with variation not only in the number of dominant clones but also in their level of relatedness and inbreeding. At the population level, we observed strong signals of recent evolutionary selection both in known drug resistance genes and at new loci, and these varied markedly between geographical locations. These findings demonstrate a dynamic landscape of local evolutionary adaptation in the parasite population and provide a foundation for genomic surveillance to guide effective strategies for control and elimination of P. vivax.
ISSN: 15461718
Appears in Collections:Scopus 2016-2017

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