Identification of a large noncoding RNA in extremophilic eubacteria

Proc Natl Acad Sci U S A. 2006 Dec 19;103(51):19490-5. doi: 10.1073/pnas.0607493103. Epub 2006 Dec 12.


We have discovered a large and highly conserved RNA motif that typically resides in a noncoding section of a multigene messenger RNA in extremophilic Gram-positive eubacteria. RNAs of this class adopt an ornate secondary structure, are large compared with most other noncoding RNAs, and have been identified only in certain extremophilic bacteria. These ornate, large, extremophilic (OLE) RNAs have a length of approximately 610 nucleotides, and the 35 representatives examined exhibit extraordinary conservation of nucleotide sequence and base pairing. Structural probing of the OLE RNA from Bacillus halodurans corroborates a complex secondary structure model predicted from comparative sequence analysis. The patterns of structural conservation, and its unique phylogenetic distribution, suggest that OLE RNA carries out a complex and critical function only in certain extremophilic bacteria.

Publication types

  • Comparative Study
  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Bacteria / genetics*
  • Base Sequence
  • Cloning, Molecular
  • Computational Biology
  • DNA Primers
  • Molecular Sequence Data
  • RNA, Messenger / genetics*
  • RNA, Untranslated / genetics*
  • Reverse Transcriptase Polymerase Chain Reaction
  • Sequence Analysis, DNA
  • Species Specificity


  • DNA Primers
  • RNA, Messenger
  • RNA, Untranslated