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Micro-epidemiological structuring of Plasmodium falciparum parasite populations in regions with varying transmission intensities in Africa [version 2; peer review: 4 approved]

Title: Micro-epidemiological structuring of Plasmodium falciparum parasite populations in regions with varying transmission intensities in Africa [version 2; peer review: 4 approved]
Authors: Omedo, I
Mogeni, P
Bousema, T
Rockett, K
Amambua-Ngwa, A
Oyier, I
C Stevenson, J
Y Baidjoe, A
De Villiers, EP
Fegan, G
Ross, A
Hubbart, C
Jeffreys, A
N Williams, T
Kwiatkowski, D
Bejon, P
Item Type: Journal Article
Abstract: Background: The first models of malaria transmission assumed a completely mixed and homogeneous population of parasites. Recent models include spatial heterogeneity and variably mixed populations. However, there are few empiric estimates of parasite mixing with which to parametize such models. Methods: Here we genotype 276 single nucleotide polymorphisms (SNPs) in 5199 P. falciparum isolates from two Kenyan sites (Kilifi county and Rachuonyo South district) and one Gambian site (Kombo coastal districts) to determine the spatio-temporal extent of parasite mixing, and use Principal Component Analysis (PCA) and linear regression to examine the relationship between genetic relatedness and distance in space and time for parasite pairs. Results: Using 107, 177 and 82 SNPs that were successfully genotyped in 133, 1602, and 1034 parasite isolates from The Gambia, Kilifi and Rachuonyo South district, respectively, we show that there are no discrete geographically restricted parasite sub-populations, but instead we see a diffuse spatio-temporal structure to parasite genotypes. Genetic relatedness of sample pairs is predicted by relatedness in space and time. Conclusions: Our findings suggest that targeted malaria control will benefit the surrounding community, but unfortunately also that emerging drug resistance will spread rapidly through the population.
Issue Date: 8-Sep-2017
Date of Acceptance: 1-Sep-2017
URI: http://hdl.handle.net/10044/1/85210
DOI: 10.12688/wellcomeopenres.10784.2
ISSN: 2398-502X
Publisher: F1000Research
Journal / Book Title: Wellcome Open Research
Volume: 2
Copyright Statement: © 2017 Omedo I et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Data associated with the article are available under the terms of the Creative Commons Zero "No rights reserved" data waiver (CC0 1.0 Public domain dedication).
Sponsor/Funder: Wellcome Trust
Wellcome Trust
Funder's Grant Number: 091758/B/10/Z
202800/Z/16/Z
Keywords: Plasmodium falciparum
genotyping
malaria
micro-epidemiological
parasite mixing
population structure
principal component analysis
targeted control
Plasmodium falciparum
genotyping
malaria
micro-epidemiological
parasite mixing
population structure
principal component analysis
targeted control
Publication Status: Published online
Conference Place: England
Article Number: ARTN 10
Appears in Collections:Department of Infectious Diseases



This item is licensed under a Creative Commons License Creative Commons