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Journal of Molecular Evolution

, Volume 61, Issue 4, pp 524–530 | Cite as

tRNA Creation by Hairpin Duplication

  • Jeremy Widmann
  • Massimo Di Giulio
  • Michael Yarus
  • Rob KnightEmail author
Article

Abstract

Many studies have suggested that the modern cloverleaf structure of tRNA may have arisen through duplication of a primordial hairpin, but the timing of this duplication event has been unclear. Here we measure the level of sequence identity between the two halves of each of a large sample of tRNAs and compare this level to that of chimeric tRNAs constructed either within or between groups defined by phylogeny and/or specificity. We find that actual tRNAs have significantly more matches between the two halves than do random sequences that can form the tRNA structure, but there is no difference in the average level of matching between the two halves of an individual tRNA and the average level of matching between the two halves of the chimeric tRNAs in any of the sets we constructed. These results support the hypothesis that the modern tRNA cloverleaf arose from a single hairpin duplication prior to the divergence of modern tRNA specificities and the three domains of life.

Keywords

tRNA Hairpin duplication Cloverleaf 

Notes

Acknowledgments

This work was supported by a seed grant from the W. M. Keck Foundation RNA Bioinformatics Initiative. We thank members of the Knight and Yarus labs for critical discussion of the manuscript.

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Copyright information

© Springer Science+Business Media, Inc. 2005

Authors and Affiliations

  • Jeremy Widmann
    • 1
  • Massimo Di Giulio
    • 2
  • Michael Yarus
    • 3
  • Rob Knight
    • 1
    Email author
  1. 1.Department of Chemistry and BiochemistryUniversity of ColoradoBoulderUSA
  2. 2.International Institute of Genetics and BiophysicsCNRItaly
  3. 3.Department of Molecular, Cellular and Developmental BiologyUniversity of ColoradoBoulderUSA

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