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Chapter 26 : Bacterial Small RNAs in Mixed Regulatory Networks

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Abstract:

Regulatory RNAs have emerged as important regulators of gene expression in all kingdoms of life, and many advances toward the understanding of their biology have been achieved in bacteria. Bacterial regulatory RNAs are often also referred to as small RNAs (sRNAs), as most of them range in size from 50 to 400 nucleotides. While it was recognized early on that these sRNAs can ensure extremely diverse biological functions, such as -translation (transfer-messenger RNA), ribonucleolytic activity (RNA moiety of the RNase P), or even involvement in protein secretion (4.5S RNA), the shared efforts of multiple groups in the last 2 decades have led to the identification of a plethora of sRNAs in virtually all bacteria. Many of these act as posttranscriptional regulators of gene expression and generally function by imperfectly base-pairing to target mRNA(s), leading to changes in their translation and/or stability.

Citation: Brosse A, Guillier M. 2019. Bacterial Small RNAs in Mixed Regulatory Networks, p 453-469. In Storz G, Papenfort K (ed), Regulating with RNA in Bacteria and Archaea. ASM Press, Washington, DC. doi: 10.1128/microbiolspec.RWR-0014-2017
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Figure 1

Examples of connections between transcriptional and posttranscriptional control. Transcriptional regulators/transcriptional regulations and sRNAs/posttranscriptional regulations are in blue and red, respectively. Green nodes indicate nonregulatory target genes. Examples of TR, sRNA, or target found in the depicted circuits are given on the side, and positive or negative regulatory interactions were chosen here based on these examples. Note, however, that all regulations can be positive or negative. Known regulatory interactions between imperfectly base-pairing sRNAs and TRs in and . For clarity, target genes that do not encode regulators are not shown. Unless otherwise indicated, only direct or likely direct interactions are shown. See Table 1 for details.

Citation: Brosse A, Guillier M. 2019. Bacterial Small RNAs in Mixed Regulatory Networks, p 453-469. In Storz G, Papenfort K (ed), Regulating with RNA in Bacteria and Archaea. ASM Press, Washington, DC. doi: 10.1128/microbiolspec.RWR-0014-2017
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Image of Figure 2
Figure 2

Feedback circuit between the EnvZ-OmpR TCS and OmrA/B sRNAs. OmrA/B sRNAs are transcribed from two adjacent genes and repress expression of multiple mRNAs, including the mRNA, encoding the EnvZ-OmpR TCS. This control decreases the levels of OmpR, but without affecting that of OmpR-P, its phosphorylated form. Because transcription is directly activated by OmpR-P but also responds to the nonphosphorylated OmpR, this feedback circuit allows OmrA/B to indirectly modulate their own synthesis, while expression of other OmpR targets such as or porin genes that are regulated only by OmpR-P remains unchanged. See reference for details.

Citation: Brosse A, Guillier M. 2019. Bacterial Small RNAs in Mixed Regulatory Networks, p 453-469. In Storz G, Papenfort K (ed), Regulating with RNA in Bacteria and Archaea. ASM Press, Washington, DC. doi: 10.1128/microbiolspec.RWR-0014-2017
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Tables

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Table 1

Examples of imperfectly base-pairing small RNAs regulated by and/or regulating TRs in and

Citation: Brosse A, Guillier M. 2019. Bacterial Small RNAs in Mixed Regulatory Networks, p 453-469. In Storz G, Papenfort K (ed), Regulating with RNA in Bacteria and Archaea. ASM Press, Washington, DC. doi: 10.1128/microbiolspec.RWR-0014-2017
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Table 2

Examples of connections between imperfectly base-pairing sRNAs and TRs in species other than or

Citation: Brosse A, Guillier M. 2019. Bacterial Small RNAs in Mixed Regulatory Networks, p 453-469. In Storz G, Papenfort K (ed), Regulating with RNA in Bacteria and Archaea. ASM Press, Washington, DC. doi: 10.1128/microbiolspec.RWR-0014-2017

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