The Identity of the Constriction Region of the Ribosomal Exit Tunnel Is Important to Maintain Gene Expression in Escherichia coli.
The Identity of the Constriction Region of the Ribosomal Exit Tunnel Is Important to Maintain Gene Expression in Escherichia coli.
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DOI：
10.1128/spectrum.02261-21
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发表时间：
2022-04-27
影响因子：
3.7
通讯作者：
中科院分区：
文献类型：
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作者：
细菌核糖体的突变通常会影响基因表达，从而影响细胞的适应性。了解突变核糖体如何破坏全局基因表达对于确定影响细菌存活的关键遗传因素至关重要。在这里，我们描述了基因表达和表型的变化，大肠杆菌细胞携带的uL 22（K90 D）突变体核糖体蛋白，在生长过程中显示的改变。核糖体分析显示，参与catastrophin，吲哚生产，赖氨酸依赖性耐酸性的操纵子的表达减少。在一般情况下，翻译起始的近端基因在几个这些受影响的操纵子大幅减少。这些表达的减少伴随着酸诱导的膜蛋白和伴侣蛋白，谷氨酸脱羧酶调节子和自诱导物-2代谢调节子的表达增加。与这些变化一致，uL 22（K90 D）突变细胞具有更高的谷氨酸脱羧酶活性，在极酸性条件下存活更好，并在静态培养中产生更多的生物膜相比，其亲本菌株。我们的工作表明，在核糖体蛋白的非保守残基中的单个突变会影响大量基因，从而改变pH抗性和生物膜的形成。重要信息所有新合成的蛋白质在进入细胞质、细胞膜和其他区域之前，必须通过核糖体中一个称为出口通道的通道。隧道的结构特征可以以物种特异性的方式控制蛋白质折叠和基因表达，但隧道元件的身份如何影响基因表达还不太清楚。我们的全球转录组学和翻译组分析表明，在E。大肠杆菌隧道蛋白uL 22对催化剂、细胞信号传导和耐酸性系统具有深远的影响。因此，携带uL 22突变体核糖体的细胞具有增加的在酸性条件下存活并形成生物膜的能力。这项工作揭示了以前未被认识到的隧道身份和细菌压力适应之间的联系，涉及pH响应和生物膜形成。
Mutational changes in bacterial ribosomes often affect gene expression and consequently cellular fitness. Understanding how mutant ribosomes disrupt global gene expression is critical to determining key genetic factors that affect bacterial survival. Here, we describe gene expression and phenotypic changes presented in Escherichia coli cells carrying an uL22(K90D) mutant ribosomal protein, which displayed alterations during growth. Ribosome profiling analyses revealed reduced expression of operons involved in catabolism, indole production, and lysine-dependent acid resistance. In general, translation initiation of proximal genes in several of these affected operons was substantially reduced. These reductions in expression were accompanied by increases in the expression of acid-induced membrane proteins and chaperones, the glutamate-decarboxylase regulon, and the autoinducer-2 metabolic regulon. In agreement with these changes, uL22(K90D) mutant cells had higher glutamate decarboxylase activity, survived better in extremely acidic conditions, and generated more biofilm in static cultures compared to their parental strain. Our work demonstrates that a single mutation in a non-conserved residue of a ribosomal protein affects a substantial number of genes to alter pH resistance and the formation of biofilms. IMPORTANCE All newly synthesized proteins must pass through a channel in the ribosome named the exit tunnel before emerging into the cytoplasm, membrane, and other compartments. The structural characteristics of the tunnel could govern protein folding and gene expression in a species-specific manner but how the identity of tunnel elements influences gene expression is less well-understood. Our global transcriptomics and translatome profiling demonstrate that a single substitution in a non-conserved amino acid of the E. coli tunnel protein uL22 has a profound impact on catabolism, cellular signaling, and acid resistance systems. Consequently, cells bearing the uL22 mutant ribosomes had an increased ability to survive acidic conditions and form biofilms. This work reveals a previously unrecognized link between tunnel identity and bacterial stress adaptation involving pH response and biofilm formation.
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影响因子：
3.4
作者：
Chimerel, Catalin;Field, Christopher M.;Pinero-Fernandez, Silvia;Keyser, Ulrich F.;Summers, David K.
通讯作者：
Summers, David K.
影响因子：
3.2
作者：
Barrios, AFG;Zuo, RJ;Wood, TK
通讯作者：
Wood, TK
影响因子：
3.2
作者：
Castanie-Cornet, MP;Penfound, TA;Foster, JW
通讯作者：
Foster, JW
影响因子：
16
作者：
Gabashvili, IS;Gregory, ST;Frank, J
通讯作者：
Frank, J
影响因子：
3.2
作者：
DeLisa, MP;Wu, CF;Bentley, WE
通讯作者：
Bentley, WE