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Microsatellite markers reveal low levels of population sub-structuring of Plasmodium falciparum in southwestern Nigeria.

Oyebola MK, Idowu ET, Nyang H, Olukosi YA, Otubanjo OA, Nwakanma DC, Awolola ST, Amambua-Ngwa A - Malar. J. (2014)

Bottom Line: No matching multilocus haplotypes were found and analysis of multilocus LD showed no significant index of association.Genetic differentiation between populations was low (ΦPT = 0.017).The absence of detectable population structure of P. falciparum in southwestern Nigeria is evident in the lack of significant differentiation between populations separated by about 200 km.

View Article: PubMed Central - PubMed

Affiliation: Medical Research Council, Gambia Unit, Fajara, The Gambia. angwa@mrc.gm.

ABSTRACT

Background: Genetic diversity studies provide evidence of Plasmodium falciparum differentiation that could affect fitness and adaptation to drugs and target antigens for vaccine development. This study describes the genetic structure of P. falciparum populations in urban and rural sites from southwestern Nigeria.

Methodology: Ten neutral microsatellite loci were genotyped in 196 P. falciparum infections from three localities: Aramoko-Ekiti, a rural community; Lekki, an urban location and Badagry, a peri-urban border settlement. Analysis was performed on the genetic diversity, linkage disequilibrium, population structure and inter-population differentiation.

Results: Allelic diversity values were similar across all populations, with mean expected heterozygosity (HE) values between 0.65 and 0.79. No matching multilocus haplotypes were found and analysis of multilocus LD showed no significant index of association. Genetic differentiation between populations was low (ΦPT = 0.017).

Conclusion: The absence of detectable population structure of P. falciparum in southwestern Nigeria is evident in the lack of significant differentiation between populations separated by about 200 km. This implies that a fairly uniform malaria control strategy may be effective over a wide geographic range in this highly endemic region. However, more wide-scale survey across the country will be required to inform malaria control in this large and densely populated endemic region.

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Population structure ofP. falciparumisolates from southwestern Nigeria: Principal coordinate analysis (PCoA) from allelic variance at 10 haploid microsatellite loci. (Coordinates 2 and 3 in the PCoA show limited sub-structuring of P. falciparum isolates into two clusters not determined by site).
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Fig4: Population structure ofP. falciparumisolates from southwestern Nigeria: Principal coordinate analysis (PCoA) from allelic variance at 10 haploid microsatellite loci. (Coordinates 2 and 3 in the PCoA show limited sub-structuring of P. falciparum isolates into two clusters not determined by site).

Mentions: Forty-three isolates (~22%) had complete genotype data for all loci from which analysis of multilocus haplotypes was examined. No matching multilocus haplotypes were found. Comparisons of populations using AMOVA showed that genetic differentiation was low with ΦPT = 0.017 (P = 0.772). Pairwise genetic distances between LEK and BDG, LEK and AMK and BDG and AMK parasite populations, calculated as Nei unbiased genetic distance (uD), were 0.164, 0.175 and 0.074 respectively. The relationship between genetic distance and the natural log of the geographical distance for each pair of parasite population studied is presented in Figure 3. Principal coordinates analysis (PCoA) showed two distinct clusters of parasites not defined by the origins of individual population (Figure 4). AMOVA also indicated that almost all the genetic variations among parasites (99.98%) were contained within populations. Analysis of multilocus LD showed no significant index of association in all the parasite populations (Table 4).Figure 3


Microsatellite markers reveal low levels of population sub-structuring of Plasmodium falciparum in southwestern Nigeria.

Oyebola MK, Idowu ET, Nyang H, Olukosi YA, Otubanjo OA, Nwakanma DC, Awolola ST, Amambua-Ngwa A - Malar. J. (2014)

Population structure ofP. falciparumisolates from southwestern Nigeria: Principal coordinate analysis (PCoA) from allelic variance at 10 haploid microsatellite loci. (Coordinates 2 and 3 in the PCoA show limited sub-structuring of P. falciparum isolates into two clusters not determined by site).
© Copyright Policy - open-access
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4300683&req=5

Fig4: Population structure ofP. falciparumisolates from southwestern Nigeria: Principal coordinate analysis (PCoA) from allelic variance at 10 haploid microsatellite loci. (Coordinates 2 and 3 in the PCoA show limited sub-structuring of P. falciparum isolates into two clusters not determined by site).
Mentions: Forty-three isolates (~22%) had complete genotype data for all loci from which analysis of multilocus haplotypes was examined. No matching multilocus haplotypes were found. Comparisons of populations using AMOVA showed that genetic differentiation was low with ΦPT = 0.017 (P = 0.772). Pairwise genetic distances between LEK and BDG, LEK and AMK and BDG and AMK parasite populations, calculated as Nei unbiased genetic distance (uD), were 0.164, 0.175 and 0.074 respectively. The relationship between genetic distance and the natural log of the geographical distance for each pair of parasite population studied is presented in Figure 3. Principal coordinates analysis (PCoA) showed two distinct clusters of parasites not defined by the origins of individual population (Figure 4). AMOVA also indicated that almost all the genetic variations among parasites (99.98%) were contained within populations. Analysis of multilocus LD showed no significant index of association in all the parasite populations (Table 4).Figure 3

Bottom Line: No matching multilocus haplotypes were found and analysis of multilocus LD showed no significant index of association.Genetic differentiation between populations was low (ΦPT = 0.017).The absence of detectable population structure of P. falciparum in southwestern Nigeria is evident in the lack of significant differentiation between populations separated by about 200 km.

View Article: PubMed Central - PubMed

Affiliation: Medical Research Council, Gambia Unit, Fajara, The Gambia. angwa@mrc.gm.

ABSTRACT

Background: Genetic diversity studies provide evidence of Plasmodium falciparum differentiation that could affect fitness and adaptation to drugs and target antigens for vaccine development. This study describes the genetic structure of P. falciparum populations in urban and rural sites from southwestern Nigeria.

Methodology: Ten neutral microsatellite loci were genotyped in 196 P. falciparum infections from three localities: Aramoko-Ekiti, a rural community; Lekki, an urban location and Badagry, a peri-urban border settlement. Analysis was performed on the genetic diversity, linkage disequilibrium, population structure and inter-population differentiation.

Results: Allelic diversity values were similar across all populations, with mean expected heterozygosity (HE) values between 0.65 and 0.79. No matching multilocus haplotypes were found and analysis of multilocus LD showed no significant index of association. Genetic differentiation between populations was low (ΦPT = 0.017).

Conclusion: The absence of detectable population structure of P. falciparum in southwestern Nigeria is evident in the lack of significant differentiation between populations separated by about 200 km. This implies that a fairly uniform malaria control strategy may be effective over a wide geographic range in this highly endemic region. However, more wide-scale survey across the country will be required to inform malaria control in this large and densely populated endemic region.

Show MeSH
Related in: MedlinePlus