Riboswitches in eubacteria sense the second messenger c-di-AMP

Nat Chem Biol. 2013 Dec;9(12):834-9. doi: 10.1038/nchembio.1363. Epub 2013 Oct 20.


Cyclic di-adenosine monophosphate (c-di-AMP) is a recently discovered bacterial second messenger implicated in the control of cell wall metabolism, osmotic stress responses and sporulation. However, the mechanisms by which c-di-AMP triggers these physiological responses have remained largely unknown. Notably, a candidate riboswitch class called ydaO associates with numerous genes involved in these same processes. Although a representative ydaO motif RNA recently was reported to weakly bind ATP, we report that numerous members of this noncoding RNA class selectively respond to c-di-AMP with subnanomolar affinity. Our findings resolve the mystery regarding the primary ligand for this extremely common riboswitch class and expose a major portion of the super-regulon of genes that are controlled by the widespread bacterial second messenger c-di-AMP.

Publication types

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

MeSH terms

  • Bacillus subtilis / genetics
  • Bacillus subtilis / metabolism*
  • Dinucleoside Phosphates / metabolism*
  • Gene Expression Regulation, Bacterial / physiology
  • Nucleic Acid Conformation
  • RNA, Untranslated / genetics
  • RNA, Untranslated / metabolism
  • Riboswitch / physiology*
  • Signal Transduction
  • Yeasts


  • Dinucleoside Phosphates
  • RNA, Untranslated
  • Riboswitch
  • cyclic diadenosine phosphate