The in vivo RNA structurome of the malaria parasite Plasmodium falciparum , a protozoan with an A/T-rich transcriptome
The in vivo RNA structurome of the malaria parasite Plasmodium falciparum , a protozoan with an A/T-rich transcriptome
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疟原虫恶性疟原虫（一种富含 A/T 转录组的原生动物）的体内 RNA 结构组
DOI：
10.1101/2021.04.29.441925
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发表时间：
2021
期刊：
影响因子：
--
通讯作者：
Dumetz F
中科院分区：
文献类型：
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作者：
Dumetz F
恶性疟原虫是一种原生动物寄生虫，也是人类疟疾的病原体，其基因组是迄今为止测序的 A/T 偏差最大的基因组之一。这可能赋予基因组和转录组不寻常的结构特征。测序技术的最新进展使得在转录组水平上研究 RNA 分子的二级结构成为可能。因此，在这项研究中，我们产生了具有高度 A/U 偏向转录组的原生动物寄生虫的体内 RNA 结构组。我们证明可以使用两种不同的化学探针在体内探测恶性疟原虫mRNA分子的二级结构，并获得了转录组中一半以上转录本的结构。与计算机模拟的相同结构相比，这些结构表现出更高的稳定性（更低的自由能），并且结构特征似乎会影响翻译效率和 RNA 衰减。最后，我们将恶性疟原虫 mRNA 结构组与 A/U 平衡物种诺氏疟原虫的预测 RNA 结构组进行比较，发现恶性疟原虫总体转录稳定性较低，发夹和多茎环较多。这种不寻常的原生动物 RNA 结构组将为其他原生动物以及其他不寻常基因组中的类似研究提供基础。
Plasmodium falciparum, a protozoan parasite and causative agent of human malaria, has one of the most A/T-biased genomes sequenced to date. This may give the genome and the transcriptome unusual structural features. Recent progress in sequencing techniques has made it possible to study the secondary structures of RNA molecules at the transcriptomic level. Thus, in this study we produced thein vivoRNA structurome of a protozoan parasite with a highly A/U-biased transcriptome. We showed that it is possible to probe the secondary structures ofP.falciparumRNA moleculesin vivousing two different chemical probes, and obtained structures for more than half of all transcripts in the transcriptome. These showed greater stability (lower free energy) than the same structures modelledin silico, and structural features appeared to influence translation efficiency and RNA decay. Finally, we compared theP.falciparumRNA structurome with the predicted RNA structurome of an A/U-balanced species,P.knowlesi, finding a bias towards lower overall transcript stability and more hairpins and multi-stem loops inP.falciparum.This unusual protozoan RNA structurome will provide a basis for similar studies in other protozoans and also in other unusual genomes.