A molecular barcode to inform the geographical origin and transmission dynamics of Plasmodium vivax malaria
Autoři:
Ernest Diez Benavente aff001; Monica Campos aff001; Jody Phelan aff001; Debbie Nolder aff001; Jamille G. Dombrowski aff002; Claudio R. F. Marinho aff002; Kanlaya Sriprawat aff003; Aimee R. Taylor aff004; James Watson aff006; Cally Roper aff001; Francois Nosten aff003; Colin J. Sutherland aff001; Susana Campino aff001; Taane G. Clark aff001
Působiště autorů:
Faculty of Infectious & Tropical Diseases, London School of Hygiene & Tropical Medicine, London, United Kingdom
aff001; Department of Parasitology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil
aff002; Shoklo Malaria Research Unit, Mahidol-Oxford Tropical Medicine Research Unit, Faculty of Tropical Medicine, Mahidol University, Mae Sot, Tak, Thailand
aff003; Harvard T.H. Chan School of Public Health, Department of Epidemiology, Boston, Massachusetts, United States of America
aff004; Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America
aff005; Centre for Tropical Medicine and Global Health, Nuffield Department of Clinical Medicine Research Building, University of Oxford Old Road Campus, Oxford, United Kingdom
aff006; Mahidol Oxford Research Unit, Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand
aff007; Faculty of Epidemiology and Population Health, London School of Hygiene and Tropical Medicine, London, United Kingdom
aff008
Vyšlo v časopise:
A molecular barcode to inform the geographical origin and transmission dynamics of Plasmodium vivax malaria. PLoS Genet 16(2): e32767. doi:10.1371/journal.pgen.1008576
Kategorie:
Research Article
doi:
https://doi.org/10.1371/journal.pgen.1008576
Souhrn
Although Plasmodium vivax parasites are the predominant cause of malaria outside of sub-Saharan Africa, they not always prioritised by elimination programmes. P. vivax is resilient and poses challenges through its ability to re-emerge from dormancy in the human liver. With observed growing drug-resistance and the increasing reports of life-threatening infections, new tools to inform elimination efforts are needed. In order to halt transmission, we need to better understand the dynamics of transmission, the movement of parasites, and the reservoirs of infection in order to design targeted interventions. The use of molecular genetics and epidemiology for tracking and studying malaria parasite populations has been applied successfully in P. falciparum species and here we sought to develop a molecular genetic tool for P. vivax. By assembling the largest set of P. vivax whole genome sequences (n = 433) spanning 17 countries, and applying a machine learning approach, we created a 71 SNP barcode with high predictive ability to identify geographic origin (91.4%). Further, due to the inclusion of markers for within population variability, the barcode may also distinguish local transmission networks. By using P. vivax data from a low-transmission setting in Malaysia, we demonstrate the potential ability to infer outbreak events. By characterising the barcoding SNP genotypes in P. vivax DNA sourced from UK travellers (n = 132) to ten malaria endemic countries predominantly not used in the barcode construction, we correctly predicted the geographic region of infection origin. Overall, the 71 SNP barcode outperforms previously published genotyping methods and when rolled-out within new portable platforms, is likely to be an invaluable tool for informing targeted interventions towards elimination of this resilient human malaria.
Klíčová slova:
Asia – Genomics – Malaria – Molecular genetics – Phylogenetic analysis – Plasmodium – principal component analysis – Trees
Zdroje
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