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Related Experiment Videos

Conserved upstream open reading frames in higher plants.

Michael K Tran1, Carolyn J Schultz, Ute Baumann

  • 1Australian Centre for Plant Functional Genomics PMB 1 Glen Osmond SA 5064, Australia. michael.tran@acpfg.com.au

BMC Genomics
|August 1, 2008
PubMed
Summary
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Conserved upstream open reading frames (uORFs) are rare in cereal transcriptomes. These uORFs, found in less than 150 loci, are short, highly conserved, and regulate gene translation.

Area of Science:

  • Molecular Biology
  • Genomics
  • Plant Science

Background:

  • Upstream open reading frames (uORFs) regulate main open reading frame (mORF) translation via ribosomal stalling or reduced reinitiation.
  • Conserved uORFs are rare in distantly related plants like rice and Arabidopsis (~100 loci).

Purpose of the Study:

  • Investigate the prevalence of conserved uORFs in closely related plant species (cereals).
  • Identify potential translation regulatory elements in cereal transcriptomes.

Main Methods:

  • Employed a homology-based approach to identify orthologous sequences in five cereal species.
  • Utilized a comparative R-nomics program (uORFSCAN) to detect conserved uORFs.

Main Results:

  • Identified conserved uORFs in cereal transcriptomes, indicating their role in translational regulation.

Related Experiment Videos

  • Found conserved uORFs are rare (<150 loci), short (<100 nt), and highly conserved (50% median amino acid similarity).
  • Observed no positional dependence of uORFs in 5'-UTRs; start codon context and rare codon usage are not critical.

    • Conclusions:

    • Discovered novel genes potentially regulated by conserved uORFs in cereals.
    • Confirmed the rarity and specific characteristics of conserved uORFs in monocotyledonous plants.