OxyS RNA

OxyS RNA
Predicted secondary structure and sequence conservation of OxyS
Identifiers
SymbolOxyS
RfamRF00035
Other data
RNA typeGene; sRNA
DomainBacteria
SOSO:0000384
PDB structuresPDBe

OxyS RNA is a small non-coding RNA which is induced in response to oxidative stress in Escherichia coli. This RNA acts as a global regulator to activate or repress the expression of as many as 40 genes, by an antisense mechanism, including the fhlA-encoded transcriptional activator and the rpoS-encoded sigma(s) subunit of RNA polymerase. OxyS is bound by the Hfq protein, that increases the OxyS RNA interaction with its target messages. Binding to Hfq alters the conformation of OxyS. The 109 nucleotide RNA is thought to be composed of three stem-loops.

Target genes

A number of additional targets were predicted and verified using microarray analysis. These are listed below:

Furthermore, the mRNA encoded by the nusG gene is a direct target of OxyS.

References

  1. ↑ Altuvia, S; Zhang A; Argaman L; Tiwari A; Storz G (1998). "The Escherichia coli OxyS regulatory RNA represses fhlA translation by blocking ribosome binding". EMBO J. 17 (20): 6069–6075. doi:10.1093/emboj/17.20.6069. PMC 1170933. PMID 9774350.
  2. ↑ Zhang, A; Wassarman KM; Ortega J; Steven AC; Storz G (2002). "The Sm-like Hfq protein increases OxyS RNA interaction with target mRNAs". Mol Cell. 9 (1): 11–22. doi:10.1016/S1097-2765(01)00437-3. PMID 11804582.
  3. ↑ Holmqvist E, Wright PR, Li L, Bischler T, Barquist L, Reinhardt R, Backofen R, Vogel J (2016). "Global RNA recognition patterns of post-transcriptional regulators Hfq and CsrA revealed by UV crosslinking in vivo". EMBO J. 35 (9): 991–1011. doi:10.15252/embj.201593360. PMC 5207318. PMID 27044921.
  4. ↑ Henderson, CA; Vincent, HA; Casamento, A; Stone, CM; Phillips, JO; Cary, PD; Sobott, F; Gowers, DM; Taylor, JE; Callaghan, AJ (August 2013). "Hfq binding changes the structure of Escherichia coli small noncoding RNAs OxyS and RprA, which are involved in the riboregulation of rpoS". RNA. 19 (8): 1089–1104. doi:10.1261/rna.034595.112. PMC 3708529. PMID 23804244.
  5. ↑ Tjaden B, Goodwin SS, Opdyke JA, et al. (2006). "Target prediction for small, noncoding RNAs in bacteria". Nucleic Acids Res. 34 (9): 2791–2802. doi:10.1093/nar/gkl356. PMC 1464411. PMID 16717284.
  6. ↑ Barshishat S, Elgrably-Weiss M, Edelstein J, Georg J, Govindarajan S, Haviv M, Wright PR, Hess WR, Altuvia S (2018). "OxyS small RNA induces cell cycle arrest to allow DNA damage repair". EMBO J. 37 (3): 413–426. doi:10.15252/embj.201797651. PMC 5793797. PMID 29237698.