Plasmodium falciparum genomic surveillance reveals spatial and temporal trends, association of genetic and physical distance, and household clustering.
Plasmodium falciparum genomic surveillance reveals spatial and temporal trends, association of genetic and physical distance, and household clustering.
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恶性疟原虫基因组监测揭示了空间和时间趋势，遗传和物理距离的关联，以及家庭聚集。
DOI：
10.1038/s41598-021-04572-2
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发表时间：
2022-01-18
影响因子：
4.6
通讯作者：
Bei AK
中科院分区：
文献类型：
--
作者：
Sy M;Deme AB;Warren JL;Early A;Schaffner S;Daniels RF;Dieye B;Ndiaye IM;Diedhiou Y;Mbaye AM;Volkman SK;Hartl DL;Wirth DF;Ndiaye D;Bei AK
使用基因组数据的分子流行病学可以帮助确定疟疾寄生虫种群结构、疟疾传播强度之间的关系，并最终帮助生成可操作的数据来评估疟疾控制策略的有效性。基因组数据与地理信息系统数据相结合，可以进一步识别疟疾传播的集群或热点、寄生虫遗传和空间连通性，以及人类或蚊子随时间和空间移动而产生的寄生虫移动。在这项研究中，我们在四年内对来自塞内加尔蒂耶斯不同社区和家庭的 70 名参与者进行了纵向基因组监测，该地区疟疾传播率极低（昆虫接种率低于 1）。使用24个单核苷酸多态性分子条形码建立遗传同一性（状态同一性，IBS），根据全基因组序列数据计算血统同一性，并使用分层贝叶斯回归模型建立遗传和空间关系。我们的结果表明，家庭内遗传相似的寄生虫聚集在一起，并且随着距离的增加，寄生虫的遗传相似性下降。一个家庭表现出极高的多样性，值得进一步调查这些不同遗传类型的来源。这项研究说明了基因组数据与传统流行病学方法在监测和检测疟疾传播趋势和模式方面的效用，不仅包括社区，还包括家庭。这种方法可以在区域和全国范围内实施，以加强和支持疟疾控制和消除工作。
Molecular epidemiology using genomic data can help identify relationships between malaria parasite population structure, malaria transmission intensity, and ultimately help generate actionable data to assess the effectiveness of malaria control strategies. Genomic data, coupled with geographic information systems data, can further identify clusters or hotspots of malaria transmission, parasite genetic and spatial connectivity, and parasite movement by human or mosquito mobility over time and space. In this study, we performed longitudinal genomic surveillance in a cohort of 70 participants over four years from different neighborhoods and households in Thiès, Senegal—a region of exceptionally low malaria transmission (entomological inoculation rate less than 1). Genetic identity (identity by state, IBS) was established using a 24-single nucleotide polymorphism molecular barcode, identity by descent was calculated from whole genome sequence data, and a hierarchical Bayesian regression model was used to establish genetic and spatial relationships. Our results show clustering of genetically similar parasites within households and a decline in genetic similarity of parasites with increasing distance. One household showed extremely high diversity and warrants further investigation as to the source of these diverse genetic types. This study illustrates the utility of genomic data with traditional epidemiological approaches for surveillance and detection of trends and patterns in malaria transmission not only by neighborhood but also by household. This approach can be implemented regionally and countrywide to strengthen and support malaria control and elimination efforts.
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影响因子：
--
作者：
Omedo, Irene;Mogeni, Polycarp;Bejon, Philip
通讯作者：
Bejon, Philip
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.
影响因子：
3
作者：
Garcia, Guillermo A.;Hergott, Dianna E. B.;Guerra, Carlos A.
通讯作者：
Guerra, Carlos A.
影响因子：
6.4
作者：
Bousema, Teun;Drakeley, Chris;Gosling, Roly
通讯作者：
Gosling, Roly
影响因子：
6.4
作者：
Roh, Michelle E.;Tessema, Sofonias K.;Greenhouse, Bryan
通讯作者：
Greenhouse, Bryan