An RNA-seq based comparative approach reveals the transcriptome-wide interplay between 3′-to-5′ exoRNases and RNase Y
An RNA-seq based comparative approach reveals the transcriptome-wide interplay between 3′-to-5′ exoRNases and RNase Y
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DOI：
10.1038/s41467-020-15387-6
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发表时间：
2020-03-27
影响因子：
16.6
通讯作者：
Charpentier, Emmanuelle
中科院分区：
文献类型：
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作者：
Broglia, Laura;Lecrivain, Anne-Laure;Charpentier, Emmanuelle
RNA降解是细菌控制基因表达和适应各种环境条件的重要过程。它通常由内切核糖核酸酶（endoRNA酶）起始，其产生随后被外切核糖核酸酶（exoRNA酶）降解的中间片段。然而，缺乏对这些酶的协调作用的全球性研究。在这里，我们比较了内切RNA酶Y的靶组与来自化脓性链球菌的3-至5 '外切RNA酶的靶组，即PNase、YhaM和RNA酶R。我们观察到RNase Y优先在鸟苷之后切割，产生3 '至5 '外切RNase的底物RNA。我们证明了RNase Y加工之后是通过PNase和YhaM修剪新产生的3 '末端。相反，由RNase Y产生的RNA 5 '末端很少被进一步修剪。我们的策略，使识别的处理事件，否则无法检测。重要的是，这种方法可以在全基因组范围内研究内切RNA酶和外切RNA酶之间复杂的相互作用。
RNA degradation is an essential process that allows bacteria to control gene expression and adapt to various environmental conditions. It is usually initiated by endoribonucleases (endoRNases), which produce intermediate fragments that are subsequently degraded by exoribonucleases (exoRNases). However, global studies of the coordinated action of these enzymes are lacking. Here, we compare the targetome of endoRNase Y with the targetomes of 3-to-5 ' exoRNases from Streptococcus pyogenes, namely, PNPase, YhaM, and RNase R. We observe that RNase Y preferentially cleaves after guanosine, generating substrate RNAs for the 3 '-to-5 ' exoRNases. We demonstrate that RNase Y processing is followed by trimming of the newly generated 3 ' ends by PNPase and YhaM. Conversely, the RNA 5 ' ends produced by RNase Y are rarely further trimmed. Our strategy enables the identification of processing events that are otherwise undetectable. Importantly, this approach allows investigation of the intricate interplay between endo- and exoRNases on a genome-wide scale.