Error minimization and coding triplet/binding site associations are independent features of the canonical genetic code

James G Caporaso, Michael Yarus, Rob Knight

Research output: Contribution to journalArticle

19 Citations (Scopus)

Abstract

The canonical genetic code has been reported both to be error minimizing and to show stereochemical associations between coding triplets and binding sites. In order to test whether these two properties are unexpectedly overlapping, we generated 200,000 randomized genetic codes using each of five randomization schemes, with and without randomization of stop codons. Comparison of the code error (difference in polar requirement for single-nucleotide codon interchanges) with the coding triplet concentrations in RNA binding sites for eight amino acids shows that these properties are independent and uncorrelated. Thus, one is not the result of the other, and error minimization and triplet associations probably arose independently during the history of the genetic code. We explicitly show that prior fixation of a stereochemical core is consistent with an effective later minimization of error.

Original languageEnglish (US)
Pages (from-to)597-607
Number of pages11
JournalJournal of Molecular Evolution
Volume61
Issue number5
DOIs
StatePublished - Nov 2005
Externally publishedYes

Fingerprint

Genetic Code
genetic code
binding sites
Binding Sites
Random Allocation
Terminator Codon
stop codon
codons
Codon
Interchanges
Nucleotides
History
nucleotides
RNA
fixation
Amino Acids
history
amino acids
amino acid
code

Keywords

  • Adaptation
  • Aptamers
  • Error minimization
  • Genetic code
  • SELEX
  • Stereochemistry

ASJC Scopus subject areas

  • Genetics
  • Biochemistry
  • Biochemistry, Genetics and Molecular Biology(all)
  • Genetics(clinical)
  • Ecology, Evolution, Behavior and Systematics
  • Molecular Biology
  • Agricultural and Biological Sciences(all)
  • Agricultural and Biological Sciences (miscellaneous)

Cite this

Error minimization and coding triplet/binding site associations are independent features of the canonical genetic code. / Caporaso, James G; Yarus, Michael; Knight, Rob.

In: Journal of Molecular Evolution, Vol. 61, No. 5, 11.2005, p. 597-607.

Research output: Contribution to journalArticle

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