Crystal basis model: Codon-Anticodon interaction and genetic code evolution

  title={Crystal basis model: Codon-Anticodon interaction and genetic code evolution},
  author={A. Sciarrino and P. Sorba},
  journal={P-Adic Numbers, Ultrametric Analysis, and Applications},
  • A. Sciarrino, P. Sorba
  • Published 5 June 2014
  • Biology
  • P-Adic Numbers, Ultrametric Analysis, and Applications
Imposing a minimum principle in the framework of the so called crystal basis model of the genetic code, we determine the structure of the minimum set of 22 anticodons which allows the translational-transcription for animal mitochondrial code. The results are in very good agreement with the observed anticodons. Then, we analyse the evolution of the genetic code, with 20 amino acids encoded from the beginning, from the viewpoint of codon-anticodon interaction. Following the same spirit as above… 
3 Citations
On the representation of the genetic code by the attractors of 2-adic function
This paper gives an explicit form of representations for the standard nuclear and vertebrate mitochondrial genetics codes, using the van der Put series to set functions for the genetic codes.


Codon-anticodon interaction and the genetic code evolution
A minimum principle in codon-anticodon interaction
Analysis of codon:anticodon interactions within the ribosome provides new insights into codon reading and the genetic code structure.
The correct codon:anticodon duplexes are those whose formation and interaction with the ribosomal decoding center are not accompanied by uncompensated losses of hydrogen and ionic bonds, and an evolutionary scheme that gave rise to the mixed boxes of the genetic code is suggested.
Crystalizing the Genetic Code
A first attempt to represent the mutations relative to the deletion of apyrimidine by action of a suitable crystal spinor operator is proposed and a universal behaviour in the ratios of codon usage frequencies is put in evidence and is shown to fit nicely in the model.
The New Classification Scheme of the Genetic Code, its Early Evolution, and Trna Usage
The new classification scheme of the genetic code and the identified tRNA usage patterns support recent speculations about the early evolution of the Genetic code, in particular, pre-tRNAs might have had the ability to bind their codons in two directions to the corresponding codons.
Rewiring the keyboard: evolvability of the genetic code
The distribution and causes of secondary deviations from the canonical genetic code are examined, with the majority of non-standard codes arise from alterations in the tRNA, with most occurring by post-transcriptional modifications, such as base modification or RNA editing, rather than by substitutions within tRNA anticodons.
On malleability in the genetic code
To explain now-numerous cases of codon reassignment (departure from the “universal” code), this work suggests a pathway in which the transformed codon is temporarily ambiguous, consistent with evolution of the code via an ambiguous translational intermediate.
Evolution of the amino acid code: Inferences from mitochondrial codes
  • T. Jukes
  • Biology
    Journal of Molecular Evolution
  • 2005
It is proposed that an archetypal code containing 16 anticodons for 15 amino acids evolved into the universal code by gene duplication, followed by mutations that modified the anticodon and amino acid acceptor sites.
Codon Capture and Ambiguous Intermediate Scenarios of Genetic Code Evolution
Using the shape space of codons and tRNAs this work gives a physical description of the genetic code evolution on the basis of the codon capture and ambiguous intermediate scenarios in a consistent manner and introduces a physical quantity, codon level.