Study of the genetic code adaptability by means of a genetic algorithm.
We used simulated evolution to study the adaptability level of the canonical genetic code. An adapted genetic algorithm (GA) searches for optimal hypothetical codes. Adaptability is measured as the average variation of the hydrophobicity that the encoded amino acids undergo when errors or mutations are present in the codons of the hypothetical codes. Different types of mutations and point mutation rates that depend on codon base number are considered in this study. Previous works have used statistical approaches based on randomly generated alternative codes or have used local search techniques to determine an optimum value. In this work, we emphasize what can be concluded from the use of simulated evolution considering the results of previous works. The GA provides more information about the difficulty of the evolution of codes, without contradicting previous studies using statistical or engineering approaches. The GA also shows that, within the coevolution theory, the third base clearly improves the adaptability of the current genetic code.
Santos
José
J
University of A Coruña, Department of Computer Science, 15071 A Coruña, Spain. santos@udc.es
Monteagudo
Angel
A
D000222:Adaptation, Physiological / Q000235:genetics; D000465:Algorithms; D000596:Amino Acids / Q000235:genetics; D003062:Codon / Q000235:genetics*; D003198:Computer Simulation; D019143:Evolution, Molecular; D005815:Genetic Code / Q000235:genetics*; D008957:Models, Genetic; D009154:Mutation
D000596:Amino Acids; D003062:Codon