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Genome-Wide Prediction and Analysis of Yeast RNase III-Dependent snoRNA Processing Signals

机译：酵母RNase III依赖性snoRNA加工信号的全基因组预测和分析

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In Saccharomyces cerevisiae, the maturation of both pre-rRNA and pre-small nucleolar RNAs (pre-snoRNAs) involves common factors, thereby providing a potential mechanism for the coregulation of snoRNA and rRNA synthesis. In this study, we examined the global impact of the double-stranded-RNA-specific RNase Rnt1p, which is required for pre-rRNA processing, on the maturation of all known snoRNAs. In silico searches for Rnt1p cleavage signals, and genome-wide analysis of the Rnt1p-dependent expression profile, identified seven new Rnt1p substrates. Interestingly, two of the newly identified Rnt1p-dependent snoRNAs, snR39 and snR59, are located in the introns of the ribosomal protein genes RPL7A and RPL7B. In vitro and in vivo experiments indicated that snR39 is normally processed from the lariat of RPL7A, suggesting that the expressions of RPL7A and snR39 are linked. In contrast, snR59 is produced by a direct cleavage of the RPL7B pre-mRNA, indicating that a single pre-mRNA transcript cannot be spliced to produce a mature RPL7B mRNA and processed by Rnt1p to produce a mature snR59 simultaneously. The results presented here reveal a new role of yeast RNase III in the processing of intron-encoded snoRNAs that permits independent regulation of the host mRNA and its associated snoRNA.
机译：在酿酒酵母中，前rRNA和前小核仁RNA（pre-snoRNA）的成熟涉及共同因素，从而为snoRNA和rRNA合成的共调控提供了潜在的机制。在这项研究中，我们检查了双链RNA特异性RNase Rnt1p对所有已知snoRNA的成熟的全局影响，这是pre-rRNA加工所需的。在计算机上搜索Rnt1p裂解信号，并对Rnt1p依赖性表达谱进行全基因组分析，确定了七个新的Rnt1p底物。有趣的是，两个新发现的依赖Rnt1p的snoRNA，snR39和snR59位于核糖体蛋白基因RPL7A和RPL7B的内含子中。体外和体内实验表明，snR39通常是由RPL7A的套索加工而成的，这表明RPL7A和snR39的表达是相关的。相反，snR59是由RPL7B pre-mRNA的直接切割产生的，表明不能将单个pre-mRNA转录物剪接以产生成熟的RPL7B mRNA，并由Rnt1p加工以同时产生成熟的snR59。此处显示的结果揭示了酵母RNase III在内含子编码的snoRNA加工中的新作用，从而可以独立调节宿主mRNA及其相关的snoRNA。

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