A conserved RpoS-dependent small RNA controls the synthesis of major porin OmpD.
A conserved RpoS-dependent small RNA controls the synthesis of major porin OmpD.
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DOI：
10.1093/nar/gkr1156
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发表时间：
2012-04
影响因子：
14.9
通讯作者：
Vogel J
中科院分区：
文献类型：
--
作者：
Fröhlich KS;Papenfort K;Berger AA;Vogel J
大肠杆菌和沙门氏菌的许多小非编码RNA(SRNAs)的一个显着特征是它们在细菌生长的静止阶段积累。一些应激反应调节因子和Sigma因子已被报道指导静止期特异的sRNA的转录，但一个广泛保守的受主要静止期和应激Sigma因子控制的sRNA基因，σS(Rpos)，仍然缺乏。我们在沙门氏菌中研究了保守的SDSR sRNA，以前被称为RyeB，它是大肠杆菌中含量最丰富的固定相特异性sRNA之一。对SDSR启动子区域的比对和遗传分析有力地表明，该SRNA基因是由σS选择性转录的。我们表明，SDSR通过依赖于Hfq的碱基配对下调主要沙门氏菌孔蛋白OmpD的合成；因此，SDSR是第四个调节这种主要外膜孔蛋白的sRNA。与InvR、MICC和RMoB sRNAs类似，SDSR识别编码序列中的ompD mRNA，表明该mRNA可能主要针对起始密码子下游。通过3‘-RACE定位了ompD中的SDSR结合位点，这一实验方法有望用于预测细菌中其他sRNA与靶的相互作用。
A remarkable feature of many small non-coding RNAs (sRNAs) of Escherichia coli and Salmonella is their accumulation in the stationary phase of bacterial growth. Several stress response regulators and sigma factors have been reported to direct the transcription of stationary phase-specific sRNAs, but a widely conserved sRNA gene that is controlled by the major stationary phase and stress sigma factor, σS (RpoS), has remained elusive. We have studied in Salmonella the conserved SdsR sRNA, previously known as RyeB, one of the most abundant stationary phase-specific sRNAs in E. coli. Alignments of the sdsR promoter region and genetic analysis strongly suggest that this sRNA gene is selectively transcribed by σS. We show that SdsR down-regulates the synthesis of the major Salmonella porin OmpD by Hfq-dependent base pairing; SdsR thus represents the fourth sRNA to regulate this major outer membrane porin. Similar to the InvR, MicC and RybB sRNAs, SdsR recognizes the ompD mRNA in the coding sequence, suggesting that this mRNA may be primarily targeted downstream of the start codon. The SdsR-binding site in ompD was localized by 3′-RACE, an experimental approach that promises to be of use in predicting other sRNA–target interactions in bacteria.
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