The small RNA SraG participates in PNPase homeostasis

Fontaine, Fanette; Gasiorowski, Elise; Gracia, Céline; Ballouche, Mathieu; Caillet, J.; Marchais, Antonin; Hajnsdorf, Eliane

doi:10.1261/rna.055236.115

Cited by 15 publications

(16 citation statements)

References 80 publications

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“…In E. coli , PNPase degrades aberrant pre-tRNAs ( Li et al, 2002 ). We also obtained mutations in sraG , which encodes a small RNA that regulates pnp mRNA levels ( Fontaine et al, 2016 ).…”

Section: Resultsmentioning

confidence: 99%

An RNA Repair Operon Regulated by Damaged tRNAs

et al. 2020

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“…In E. coli , PNPase degrades aberrant pre-tRNAs ( Li et al, 2002 ). We also obtained mutations in sraG , which encodes a small RNA that regulates pnp mRNA levels ( Fontaine et al, 2016 ).…”

Section: Resultsmentioning

confidence: 99%

An RNA Repair Operon Regulated by Damaged tRNAs

et al. 2020

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“…These findings suggested that multiple sRNAs in E. piscicida deeply participated in resisting to acid pressure. sRNA040 is homologous with sraG, which was reported to participates in PNPase homeostasis [ 48 ], but there is no report of sraG about acid tolerance to the present. During iron deficiency stress, the expressions of 26 sRNAs changed significantly in E. piscicida , the amount of upregulated sRNAs were basically equal to those of downregulated sRNA among the DEsRNAs expressions.…”

Section: Discussionmentioning

confidence: 99%

Global discovery of small RNAs in the fish pathogen Edwardsiella piscicida: key regulator of adversity and pathogenicity

Zhou

Tang

et al. 2018

Vet Res

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Recently, bacterial small RNA (sRNA) has been shown to be involved as a key regulator in stress responses. sRNAs of Edwardsiella piscicida, an important aquatic pathogen, are not well characterized to date. In this study, using RNA-seq technology, we globally found and identified sRNA candidates expressed from E. piscicida grown in normal LB medium, acid pressure, iron deficiency stress, and oxidation pressure. A total of 148 sRNAs were found, including 19 previously annotated sRNAs and 129 novel sRNA candidates by searching against the Rfam database. Compared in normal condition, the expression of 103 sRNAs (DEsRNA, differentially expressed sRNA) and 1615 mRNAs (DEmRNAs, differentially expressed mRNA) showed significant differences in three stress sample. Based on the prediction by IntaRNA and relational analysis between DEsRNAs and DEmRNAs, 103 DEsRNAs were predicted to regulate 769 target mRNAs. Pleiotropic function of target DEmRNAs indicated that sRNAs extensively participated in a variety of physiological processes, including response to adversity and pathogenicity, the latter was further confirmed by infection experiment. A large number transcription factors appeared in target genes of sRNAs, which suggested that sRNAs likely deeply interlaced within complex gene regulatory networks of E. piscicida. Moreover, 49 Hfq-associated sRNAs were also identified in this study. In summary, we globally discovered sRNAs for the first time in pathogenic bacteria of fish, and our findings indicated that sRNAs in E. piscicida have important roles in adaptation to environmental stress and pathogenicity. These results also provide clues for deciphering regulation mechanism of gene expression related to physiological response and pathogenicity.Electronic supplementary materialThe online version of this article (10.1186/s13567-018-0613-z) contains supplementary material, which is available to authorized users.

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“…However, SdsR clearly has regulatory effects rather than simply functioning as a toxin; presumably, RyeA acts to modulate these effects as well (51, 52). Thus far, the only Hfq-independent antisense RNAs regulating something other than a toxin are SraG, encoded antisense to the pnp-rpsO mRNA and reported to downregulate levels of PNPase (53), and the uncharacterized RyjB sRNA, encoded antisense to sgcA.…”

Section: General Srna Categoriesmentioning

confidence: 99%

Trans-Acting Small RNAs and Their Effects on Gene Expression in Escherichia coli and Salmonella enterica

et al. 2020

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The last few decades have led to an explosion in our understanding of the major roles that small regulatory RNAs (sRNAs) play in regulatory circuits and the responses to stress in many bacterial species. Much of the foundational work was carried out with Escherichia coli and Salmonella enterica serovar Typhimurium. The studies of these organisms provided an overview of how the sRNAs function and their impact on bacterial physiology, serving as a blueprint for sRNA biology in many other prokaryotes. They also led to the development of new technologies. In this chapter, we first summarize how these sRNAs were identified, defining them in the process. We discuss how they are regulated and how they act and provide selected examples of their roles in regulatory circuits and the consequences of this regulation. Throughout, we summarize the methodologies that were developed to identify and study the regulatory RNAs, most of which are applicable to other bacteria. Newly updated databases of the known sRNAs in E. coli K-12 and S. enterica Typhimurium SL1344 serve as a reference point for much of the discussion and, hopefully, as a resource for readers and for future experiments to address open questions raised in this review.

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The small RNA SraG participates in PNPase homeostasis

Cited by 15 publications

References 80 publications

An RNA Repair Operon Regulated by Damaged tRNAs

An RNA Repair Operon Regulated by Damaged tRNAs

Global discovery of small RNAs in the fish pathogen Edwardsiella piscicida: key regulator of adversity and pathogenicity

Trans-Acting Small RNAs and Their Effects on Gene Expression in Escherichia coli and Salmonella enterica

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