Molecular epidemiology of Plasmodium falciparum by multiplexed amplicon deep sequencing in Senegal.
Molecular epidemiology of Plasmodium falciparum by multiplexed amplicon deep sequencing in Senegal.
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DOI：
10.1186/s12936-020-03471-7
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发表时间：
2020-11-10
期刊：
影响因子：
3
通讯作者：
Ndiaye D
中科院分区：
文献类型：
--
作者：
Ndiaye T;Sy M;Gaye A;Siddle KJ;Park DJ;Bei AK;Deme AB;Mbaye A;Dieye B;Ndiaye YD;Ndiaye IM;Diallo MA;Diongue K;Volkman SK;Badiane AS;Ndiaye D
分子流行病学可以提供关于恶性疟原虫遗传多样性和传播的重要信息，这可以帮助设计和监测消灭工作。然而，在塞内加尔，疟疾分子流行病学，包括了解寄生虫的遗传多样性和对传播进行分子监测的记录很少。下一代测序（NGS）提供了一种实用，快速和高通量的方法来了解疟疾群体遗传学。本研究旨在解开恶性疟原虫的种群结构，并使用NGS平台估计疟原虫的等位基因多样性，感染复数（MOI）和进化模式。对来自塞内加尔南部和北部两个流行病学不同地区的53株恶性疟原虫分离株进行了裂殖子表面蛋白1（PfMSP 1）和裂殖子表面蛋白2（PfMSP 2）的多重扩增子深度测序。共检测到76个Pfmsp 1和116个Pfmsp 2克隆，共检测到135个等位基因，其中56个属于Pfmsp 1基因，79个属于Pfmsp 2基因。K1和IC 3D 7等位基因家族在两个位点均占优势。两个基因的单倍型多样性（Hd）和核苷酸多样性（π）在南方均高于北方。对于pfmsp 1，南部观察到Tajima的D（TD）值为高正值（D = 2.0453），而北部记录到TD值为负（D =-1.46045），F统计量（Fst）为0.19505。对于pfmsp 2，在两个区域中发现了具有高度阳性TD测试的非定向选择，并且Fst为0.02111。南方和北方两个基因的平均MOI分别为3.07和1.76，两个地区之间存在统计学显著差异（p = 0.001）。本研究揭示了塞内加尔恶性疟原虫pfmsp 1和pfmsp 2基因的遗传多样性较高，遗传分化较低。南部和北方地区的MOI均值差异显著。研究结果还表明，多重扩增子深度测序是一种有用的技术，以调查恶性疟原虫感染的遗传多样性和分子流行病学。
Molecular epidemiology can provide important information regarding the genetic diversity and transmission of Plasmodium falciparum, which can assist in designing and monitoring elimination efforts. However, malaria molecular epidemiology including understanding the genetic diversity of the parasite and performing molecular surveillance of transmission has been poorly documented in Senegal. Next Generation Sequencing (NGS) offers a practical, fast and high-throughput approach to understand malaria population genetics. This study aims to unravel the population structure of P. falciparum and to estimate the allelic diversity, multiplicity of infection (MOI), and evolutionary patterns of the malaria parasite using the NGS platform. Multiplex amplicon deep sequencing of merozoite surface protein 1 (PfMSP1) and merozoite surface protein 2 (PfMSP2) in fifty-three P. falciparum isolates from two epidemiologically different areas in the South and North of Senegal, was carried out. A total of 76 Pfmsp1 and 116 Pfmsp2 clones were identified and 135 different alleles were found, 56 and 79 belonged to the pfmsp1 and pfmsp2 genes, respectively. K1 and IC3D7 allelic families were most predominant in both sites. The local haplotype diversity (Hd) and nucleotide diversity (π) were higher in the South than in the North for both genes. For pfmsp1, a high positive Tajima’s D (TD) value was observed in the South (D = 2.0453) while negative TD value was recorded in the North (D = − 1.46045) and F-Statistic (Fst) was 0.19505. For pfmsp2, non-directional selection was found with a highly positive TD test in both areas and Fst was 0.02111. The mean MOI for both genes was 3.07 and 1.76 for the South and the North, respectively, with a statistically significant difference between areas (p = 0.001). This study revealed a high genetic diversity of pfmsp1 and pfmsp2 genes and low genetic differentiation in P. falciparum population in Senegal. The MOI means were significantly different between the Southern and Northern areas. Findings also showed that multiplexed amplicon deep sequencing is a useful technique to investigate genetic diversity and molecular epidemiology of P. falciparum infections.
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影响因子：
3
作者：
Kang JM;Moon SU;Kim JY;Cho SH;Lin K;Sohn WM;Kim TS;Na BK
通讯作者：
Na BK
影响因子：
3.7
作者：
Mohd Abd Razak MR;Sastu UR;Norahmad NA;Abdul-Karim A;Muhammad A;Muniandy PK;Jelip J;Rundi C;Imwong M;Mudin RN;Abdullah NR
通讯作者：
Abdullah NR
DOI：
10.1051/parasite/2015012
发表时间：
2015
期刊：
Parasite (Paris, France)
影响因子：
--
作者：
Bouyou-Akotet MK;M'Bondoukwé NP;Mawili-Mboumba DP
通讯作者：
Mawili-Mboumba DP
影响因子：
5.8
作者：
Leclerc, MC;Durand, P;Renaud, F
通讯作者：
Renaud, F
DOI：
10.1073/pnas.1505691112
发表时间：
2015-06-02
影响因子：
11.1
作者：
Daniels, Rachel F.;Schaffner, Stephen F.;Wirth, Dyann F.
通讯作者：
Wirth, Dyann F.