Journal article
Genomic analysis of Plasmodium vivax describes patterns of connectivity and putative drivers of adaptation in Ethiopia
SCIENTIFIC REPORTS, v 13(1), 20788
27 Nov 2023
PMID: 38012191
Featured in Collection : UN Sustainable Development Goals @ Drexel
Abstract
Ethiopia has the greatest burden of Plasmodium vivax in Africa, but little is known about the epidemiological landscape of parasites across the country. We analysed the genomic diversity of 137 P. vivax isolates collected nine Ethiopian districts from 2012 to 2016. Signatures of selection were detected by cross-country comparisons with isolates from Thailand (n=104) and Indonesia (n=111), representing regions with low and high chloroquine resistance respectively. 26% (35/137) of Ethiopian infections were polyclonal, and 48.5% (17/35) of these comprised highly related clones (within-host identity-by-descent>25%), indicating frequent co-transmission and superinfection. Parasite gene flow between districts could not be explained entirely by geographic distance, with economic and cultural factors hypothesised to have an impact on connectivity. Amplification of the duffy binding protein gene (pvdbp1) was prevalent across all districts (16-75%). Cross-population haplotype homozygosity revealed positive selection in a region proximal to the putative chloroquine resistance transporter gene (pvcrt-o). An S25P variant in amino acid transporter 1 (pvaat1), whose homologue has recently been implicated in P. falciparum chloroquine resistance evolution, was prevalent in Ethiopia (96%) but not Thailand or Indonesia (35-53%). The genomic architecture in Ethiopia highlights circulating variants of potential public health concern in an endemic setting with evidence of stable transmission.
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Details
- Title
- Genomic analysis of Plasmodium vivax describes patterns of connectivity and putative drivers of adaptation in Ethiopia
- Publication Details
- SCIENTIFIC REPORTS, v 13(1), 20788
- Publisher
- NATURE PORTFOLIO; BERLIN
- Grant note
- A.M.K. was supported by the Tropical Disease Research Clinical Research and Development Fellowship (award number P20-0004) grant issued by the World Health Organisation Programme for Research and Training in Tropical Diseases (WHO/TDR). The patient sampling and metadata collection for new samples from Ethiopia were supported by The DELTAS Africa Initiative [DELGEME grant 107740/Z/15/Z] awarded to L.G. The study was also supported by the Bill and Melinda Gates Foundation (INV-043618 awarded to S.A.), the National Health and Medical Research Council of Australia (GNT2001083 awarded to S.A.), and the Wellcome Trust (200909 and ICRG GR071614MA Senior Fellowships in Clinical Science to R.N.P.). The whole genome sequencing component of the study was supported by the Medical Research Council and UK Department for International Development (award number M006212) and the Wellcome Trust (award numbers 206194 and 204911).
- Resource Type
- Journal article
- Language
- English
- Academic Unit
- Drexel University
- Web of Science ID
- WOS:001144297500062
- Scopus ID
- 2-s2.0-85177857710
- Other Identifier
- 991021861302104721
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- Collaboration types
- Domestic collaboration
- International collaboration
- Web of Science research areas
- Infectious Diseases