Spatiotemporal Organization of the E. coli Transcriptome: Translation Independence and Engagement in Regulation
Spatiotemporal Organization of the E. coli Transcriptome: Translation Independence and Engagement in Regulation
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DOI：
10.1016/j.molcel.2019.08.013
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发表时间：
2019-11-21
期刊：
影响因子：
16
通讯作者：
Amster-Choder, Orna
中科院分区：
文献类型：
--
作者：
Kannaiah, Shanmugapriya;Livny, Jonathan;Amster-Choder, Orna
RNA在真核生物中的定位是调节转录本命运的一种机制。相反，细菌转录本并不被认为是特异性定位的。我们以前证明了E.大肠杆菌mRNA可能定位于其产物以不依赖于转录的方式定位的地方，从而挑战转录-翻译偶联程度。然而，RNA在细菌中的定位范围仍然未知。在这里，我们报告的分布E。通过结合细胞分级分离和深度测序（Rloc-seq），在膜、细胞质和两极之间的大肠杆菌转录组。我们的研究结果揭示了在转录组范围内的不对称RNA分布，与蛋白质组定位和非依赖性RNA定位的流行显著相关。两极富含应激相关的mRNA和小RNA，后者在应激后以Hfq依赖的方式进一步富集。基因组组织可能在定位膜蛋白编码转录物中发挥作用。我们的研究结果显示了细菌转录组组织中出乎意料的复杂程度，并突出了极点作为调控中心。
RNA localization in eukaryotes is a mechanism to regulate transcripts fate. Conversely, bacterial transcripts were not assumed to be specifically localized. We previously demonstrated that E. coli mRNAs may localize to where their products localize in a translation-independent manner, thus challenging the transcription-translation coupling extent. However, the scope of RNA localization in bacteria remained unknown. Here, we report the distribution of the E. coli transcriptome between the membrane, cytoplasm, and poles by combining cell fractionation with deep-sequencing (Rloc-seq). Our results reveal asymmetric RNA distribution on a transcriptome-wide scale, significantly correlating with proteome localization and prevalence of translation-independent RNA localization. The poles are enriched with stress-related mRNAs and small RNAs, the latter becoming further enriched upon stress in an Hfq-dependent manner. Genome organization may play a role in localizing membrane protein-encoding transcripts. Our results show an unexpected level of intricacy in bacterial transcriptome organization and highlight the poles as hubs for regulation.