Genome-wide mRNA processing in methanogenic archaea reveals post-transcriptional regulation of ribosomal protein synthesis.
Genome-wide mRNA processing in methanogenic archaea reveals post-transcriptional regulation of ribosomal protein synthesis.
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产甲烷古菌的全基因组 mRNA 加工揭示了核糖体蛋白质合成的转录后调控
DOI：
10.1093/nar/gkx454
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发表时间：
2017-07-07
影响因子：
14.9
通讯作者：
Dong X
中科院分区：
文献类型：
--
作者：
Qi L;Yue L;Feng D;Qi F;Li J;Dong X
与需要加工以成熟的稳定RNA不同，原核细胞mRNA通常遵循“全或无”模式。在本文中，我们使用了一种5-磷酸单磷酸转录测序（5-磷酸测序），它特异性地捕获了加工转录物的5 ′-末端，并在产甲烷古菌中绘制了全基因组RNA加工位点（PSS）。经过统计分析和严格筛选，我们共鉴定出1429个PSS，其中23.5%和5.4%分别位于5 ′端非翻译区（uPSS）和基因间区（iPSS）。主要的尿苷下游PSS用作加工特征。值得注意的是，5 μ P-seq在编码核糖体蛋白的多顺反子操纵子中检测到过度表达的uPSS和iPSS，以及大多数上游和近端核糖体结合位点，表明加工对翻译起始的调节作用。处理后的转录本显示出增加的稳定性和翻译效率。特别地，在rplA-rplJ-rplL的三顺反子转录物内的加工增强了rplL的翻译，这可以为核糖体中L10与L12的1：4化学计量提供驱动力。生长相关的mRNA加工强度也与细胞核糖体蛋白水平相关，从而表明mRNA加工参与调节生长依赖性核糖体合成。总之，我们的研究结果表明，mRNA加工介导的转录后调节是一个潜在的机制，核糖体蛋白质的合成和化学计量。
Unlike stable RNAs that require processing for maturation, prokaryotic cellular mRNAs generally follow an ‘all-or-none’ pattern. Herein, we used a 5΄ monophosphate transcript sequencing (5΄P-seq) that specifically captured the 5΄-end of processed transcripts and mapped the genome-wide RNA processing sites (PSSs) in a methanogenic archaeon. Following statistical analysis and stringent filtration, we identified 1429 PSSs, among which 23.5% and 5.4% were located in 5΄ untranslated region (uPSS) and intergenic region (iPSS), respectively. A predominant uridine downstream PSSs served as a processing signature. Remarkably, 5΄P-seq detected overrepresented uPSS and iPSS in the polycistronic operons encoding ribosomal proteins, and the majority upstream and proximal ribosome binding sites, suggesting a regulatory role of processing on translation initiation. The processed transcripts showed increased stability and translation efficiency. Particularly, processing within the tricistronic transcript of rplA-rplJ-rplL enhanced the translation of rplL, which can provide a driving force for the 1:4 stoichiometry of L10 to L12 in the ribosome. Growth-associated mRNA processing intensities were also correlated with the cellular ribosomal protein levels, thereby suggesting that mRNA processing is involved in tuning growth-dependent ribosome synthesis. In conclusion, our findings suggest that mRNA processing-mediated post-transcriptional regulation is a potential mechanism of ribosomal protein synthesis and stoichiometry.