Genomic structure and diversity of Plasmodium falciparum in Southeast Asia reveal recent parasite migration patterns

Amol C. Shetty (), Christopher G. Jacob, Fang Huang, Yao Li, Sonia Agrawal, David L. Saunders, Chanthap Lon, Mark M. Fukuda, Pascal Ringwald, Elizabeth A. Ashley, Kay Thwe Han, Tin Maung Hlaing, Myaing M. Nyunt, Joana C. Silva, Kathleen E. Stewart, Christopher V. Plowe, Timothy D. O’Connor () and Shannon Takala-Harrison ()
Additional contact information
Amol C. Shetty: University of Maryland School of Medicine
Christopher G. Jacob: Wellcome Sanger Institute
Fang Huang: National Institute of Parasitic Diseases, Chinese Center for Disease Control and Prevention
Yao Li: University of Maryland
Sonia Agrawal: University of Maryland School of Medicine
David L. Saunders: Armed Forces Research Institute of Medical Sciences
Chanthap Lon: Armed Forces Research Institute of Medical Sciences
Mark M. Fukuda: Armed Forces Research Institute of Medical Sciences
Pascal Ringwald: World Health Organization
Elizabeth A. Ashley: Mahidol University
Kay Thwe Han: Ministry of Health and Sports
Tin Maung Hlaing: Defence Services Medical Research Centre
Myaing M. Nyunt: Duke Global Health Institute, Duke University
Joana C. Silva: University of Maryland School of Medicine
Kathleen E. Stewart: University of Oxford
Christopher V. Plowe: Duke Global Health Institute, Duke University
Timothy D. O’Connor: University of Maryland School of Medicine
Shannon Takala-Harrison: University of Maryland School of Medicine

Nature Communications, 2019, vol. 10, issue 1, 1-11

Abstract: Abstract Estimates of Plasmodium falciparum migration may inform strategies for malaria elimination. Here we elucidate fine-scale parasite population structure and infer recent migration across Southeast Asia using identity-by-descent (IBD) approaches based on genome-wide single nucleotide polymorphisms called in 1722 samples from 54 districts. IBD estimates are consistent with isolation-by-distance. We observe greater sharing of larger IBD segments between artemisinin-resistant parasites versus sensitive parasites, which is consistent with the recent spread of drug resistance. Our IBD analyses reveal actionable patterns, including isolated parasite populations, which may be prioritized for malaria elimination, as well as asymmetrical migration identifying potential sources and sinks of migrating parasites.

Date: 2019
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DOI: 10.1038/s41467-019-10121-3

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