6C RNA

6C RNA
Predicted secondary structure and sequence conservation of 6C RNA
Identifiers
Symbol6C
RfamRF01066
Other data
RNA typeCis-reg
DomainBacteria
SOSO:0005836
PDB structuresPDBe

6C RNA is a class of non-coding RNA present in actinomycetes. 6C RNA was originally discovered as a conserved RNA structure having two stem-loops each containing six or more cytosine (C) residues.[1] Later work revealed that 6C RNAs in Streptomyces coelicolor and Streptomyces avermitilis have predicted rho-independent transcription terminators, and microarray and reverse-transcriptase PCR experiments indicate that the S. coelicolor version is transcribed as RNA.[2][3] Transcription of the S. coelicolor RNA increases during sporulation, and three transcripts were detected that overlap the 6C motif, but have different apparent start and stop sites.[3]

Additional work established that 6C RNAs regulate a variety of protein-coding genes by acting as trans-acting antisense RNAs.[4] Among the genes regulated by 6C RNAs, many are involved in DNA replication and the export of proteins.[4] Bacteria in other studied phyla such as Pseudomonadota and Bacillota use proteins such as Hfq that facilitate antisense RNA interactions, but 6C RNAs do not appear to depend on homologs of Hfq or other proteins.[4] This lack of protein dependence might be typical of gram-positive bacteria whose genomes have high GC-content,[4] of which actinomycetes are a prominent example.

References

  1. ^ Weinberg Z, Barrick JE, Yao Z, et al. (2007). "Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline". Nucleic Acids Res. 35 (14): 4809–4819. doi:10.1093/nar/gkm487. PMC 1950547. PMID 17621584.
  2. ^ Pánek J, Bobek J, Mikulík K, Basler M, Vohradský J (2008). "Biocomputational prediction of small non-coding RNAs in Streptomyces". BMC Genomics. 9: 217. doi:10.1186/1471-2164-9-217. PMC 2422843. PMID 18477385.
  3. ^ a b Swiercz JP, Hindra; Bobek J; et al. (November 2008). "Small non-coding RNAs in Streptomyces coelicolor". Nucleic Acids Res. 36 (22): 7240–7251. doi:10.1093/nar/gkn898. PMC 2602773. PMID 19008244.
  4. ^ a b c d Mai J, Rao C, Watt J, Sun X, Lin C, Zhang L, Liu J (March 2019). "Mycobacterium tuberculosis 6C sRNA binds multiple mRNA targets via C-rich loops independent of RNA chaperones". Nucleic Acids Res. 47 (8): 4292–4307. doi:10.1093/nar/gkz149. PMC 6486639. PMID 30820540.
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