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PMID: 18006684 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Riboswitch-dependent gene regulation and its evolution in the plant kingdom.

Genes & development ·Vol. 21 ·No. 22 ·2007-11-15 ·Pages 2874-9

Bocobza S, Adato A, Mandel T, Shapira M, Nudler E, Aharoni A

Abstract

Riboswitches are natural RNA sensors that affect gene control via their capacity to bind small molecules. Their prevalence in higher eukaryotes is unclear. We discovered a post-transcriptional mechanism in plants that uses a riboswitch to control a metabolic feedback loop through differential processing of the precursor RNA 3' terminus. When cellular thiamin pyrophosphate (TPP) levels rise, metabolite sensing by the riboswitch located in TPP biosynthesis genes directs formation of an unstable splicing product, and consequently TPP levels drop. When transformed in plants, engineered TPP riboswitches can act autonomously to modulate gene expression. In an evolutionary perspective, a TPP riboswitch is also present in ancient plant taxa, suggesting that this mechanism is active since vascular plants emerged 400 million years ago.

MeSH Terms
3' Untranslated Regions/genetics Alternative Splicing Arabidopsis/genetics Base Sequence Evolution, Molecular Gene Expression Regulation, Plant/genetics Genes, Plant Introns/genetics Lycopersicon esculentum/genetics Models, Biological Models, Molecular Mutation Nucleic Acid Conformation Plants/genetics,metabolism Plants, Genetically Modified RNA, Catalytic RNA, Messenger/metabolism RNA, Plant/chemistry,genetics,metabolism Recombinant Fusion Proteins/metabolism Thiamine Pyrophosphate/genetics,metabolism
Chemicals
3' Untranslated Regions RNA, Catalytic RNA, Messenger RNA, Plant Recombinant Fusion Proteins Thiamine Pyrophosphate
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Bocobza Samuel
Department of Plant Sciences, Weizmann Institute of Science, Rehovot 76100, Israel.
Adato Avital
Mandel Tali
Shapira Michal
Nudler Evgeny
Aharoni Asaph
References (22)
22 references, click to expand
  1. Thiamine mutants of the crucifer, Arabidopsis.
    Biochem Genet. 1969 Apr;3(2):163-70 PMID: 5364924
  2. Thiamine pyrophosphate riboswitches are targets for the antimicrobial compound pyrithiamine.
    Chem Biol. 2005 Dec;12(12):1325-35 PMID: 16356850
  3. Thiamine-regulated gene expression of Aspergillus oryzae thiA requires splicing of the intron containing a riboswitch-like domain in the 5'-UTR.
    FEBS Lett. 2003 Dec 18;555(3):516-20 PMID: 14675766
  4. Role of mRNA transcript stability in modulation of expression of the gene encoding thrombin activable fibrinolysis inhibitor.
    J Thromb Haemost. 2004 Nov;2(11):1969-79 PMID: 15550029
  5. Sensing small molecules by nascent RNA: a mechanism to control transcription in bacteria.
    Cell. 2002 Nov 27;111(5):747-56 PMID: 12464185
  6. Control of alternative RNA splicing and gene expression by eukaryotic riboswitches.
    Nature. 2007 May 24;447(7143):497-500 PMID: 17468745
  7. The riboswitch control of bacterial metabolism.
    Trends Biochem Sci. 2004 Jan;29(1):11-7 PMID: 14729327
  8. Adenine riboswitches and gene activation by disruption of a transcription terminator.
    Nat Struct Mol Biol. 2004 Jan;11(1):29-35 PMID: 14718920
  9. Structure of the eukaryotic thiamine pyrophosphate riboswitch with its regulatory ligand.
    Science. 2006 May 26;312(5777):1208-11 PMID: 16675665
  10. Gain and loss of fruit flavor compounds produced by wild and cultivated strawberry species.
    Plant Cell. 2004 Nov;16(11):3110-31 PMID: 15522848
  11. Influence of RNA secondary structure on the pre-mRNA splicing process.
    Mol Cell Biol. 2004 Dec;24(24):10505-14 PMID: 15572659
  12. Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression.
    Nature. 2002 Oct 31;419(6910):952-6 PMID: 12410317
  13. Structural basis for gene regulation by a thiamine pyrophosphate-sensing riboswitch.
    Nature. 2006 Jun 29;441(7097):1167-71 PMID: 16728979
  14. Flipping riboswitches.
    Cell. 2006 Jul 14;126(1):19-22 PMID: 16839869
  15. The intricate world of riboswitches.
    Curr Opin Microbiol. 2007 Apr;10(2):176-81 PMID: 17383225
  16. Rapid insertional mutagenesis of DNA by polymerase chain reaction (PCR).
    Nucleic Acids Res. 1989 Jul 11;17(13):5404 PMID: 2548160
  17. Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana.
    Plant J. 1998 Dec;16(6):735-43 PMID: 10069079
  18. pBINPLUS: an improved plant transformation vector based on pBIN19.
    Transgenic Res. 1995 Jul;4(4):288-90 PMID: 7655517
  19. Metabolite-binding RNA domains are present in the genes of eukaryotes.
    RNA. 2003 Jun;9(6):644-7 PMID: 12756322
  20. The SHINE clade of AP2 domain transcription factors activates wax biosynthesis, alters cuticle properties, and confers drought tolerance when overexpressed in Arabidopsis.
    Plant Cell. 2004 Sep;16(9):2463-80 PMID: 15319479
  21. Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms.
    J Biol Chem. 2002 Dec 13;277(50):48949-59 PMID: 12376536
  22. Alternative splicing of pre-messenger RNAs in plants in the genomic era.
    Annu Rev Plant Biol. 2007;58:267-94 PMID: 17222076
Article Info
Journal
Genes & development
Abbr.
Genes Dev
ISSN
0890-9369
DOI
10.1101/gad.443907
Published
2007-11-15
Pages
2874-9
Language
English
Region
United States
NLM ID
8711660
PMCID
PMC2049190
Subset
IM
External Links
PubMed source DOI: 10.1101/gad.443907 PMC Full Text View journal details
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