High-resolution RNA 3'-ends mapping of bacterial Rho-dependent transcripts.
High-resolution RNA 3'-ends mapping of bacterial Rho-dependent transcripts.
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DOI：
10.1093/nar/gky274
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发表时间：
2018-07-27
影响因子：
14.9
通讯作者：
Sorek R
中科院分区：
文献类型：
--
作者：
Dar D;Sorek R
细菌中的转录终止可以通过Rho依赖性或独立（内在）机制发生。固有终止子由茎环RNA结构和随后的尿苷延伸组成，并且已知以精确的方式终止。相比之下，Rho依赖性终止子具有更松散定义的特征，并且被认为以扩散方式终止。虽然终止子的茎环结构使以内在终止子结尾的转录物免受3′-5′核酸外切酶消化，但仍不清楚是什么保护Rho依赖性转录物不被降解。在这项研究中，我们绘制了数百个大肠杆菌基因的精确稳态RNA 3′端，这些基因的终止方式包括依赖于Rho的终止方式和不依赖于Rho的终止方式。我们发现由Rho依赖性终止产生的转录物在稳态下具有精确的3′-末端。这些末端位于能量稳定的茎环结构的下游，随后没有富含尿苷的序列。我们提供的证据表明，这些结构保护3′-5′核酸外切酶，如PND 3和RNase II的Rho依赖的转录，并提出数据定位的Rho利用（车辙）网站直接下游的这些保护结构。本研究首次在大肠杆菌中构建了Rho依赖性转录物RNA 3′端的精确体内图谱。杆菌
Transcription termination in bacteria can occur either via Rho-dependent or independent (intrinsic) mechanisms. Intrinsic terminators are composed of a stem-loop RNA structure followed by a uridine stretch and are known to terminate in a precise manner. In contrast, Rho-dependent terminators have more loosely defined characteristics and are thought to terminate in a diffuse manner. While transcripts ending in an intrinsic terminator are protected from 3′-5′ exonuclease digestion due to the stem-loop structure of the terminator, it remains unclear what protects Rho-dependent transcripts from being degraded. In this study, we mapped the exact steady-state RNA 3′ ends of hundreds of Escherichia coli genes terminated either by Rho-dependent or independent mechanisms. We found that transcripts generated from Rho-dependent termination have precise 3′-ends at steady state. These termini were localized immediately downstream of energetically stable stem-loop structures, which were not followed by uridine rich sequences. We provide evidence that these structures protect Rho-dependent transcripts from 3′-5′ exonucleases such as PNPase and RNase II, and present data localizing the Rho-utilization (rut) sites immediately downstream of these protective structures. This study represents the first extensive in-vivo map of exact RNA 3′-ends of Rho-dependent transcripts in E. coli.
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影响因子：
11.1
作者：
Hui MP;Foley PL;Belasco JG
通讯作者：
Belasco JG
DOI：
10.1126/science.aad9822
发表时间：
2016-04-08
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Dar D;Shamir M;Mellin JR;Koutero M;Stern-Ginossar N;Cossart P;Sorek R
通讯作者：
Sorek R
影响因子：
28.3
作者：
Dar, Daniel;Prasse, Daniela;Sorek, Rotem
通讯作者：
Sorek, Rotem
DOI：
10.1073/pnas.0903846106
发表时间：
2009-09-08
影响因子：
11.1
作者：
Peters, Jason M.;Mooney, Rachel A.;Landick, Robert
通讯作者：
Landick, Robert
影响因子：
56.9
作者：
Cardinale, Christopher J.;Washburn, Robert S.;Nudler, Evgeny
通讯作者：
Nudler, Evgeny