Journal of Molecular Evolution

, Volume 14, Issue 4, pp 301–310

An improved method for estimating sequence divergence between related DNAs from changes in restriction endonuclease cleavage sites

Authors

  • Osamu Gotoh
    • Department of BiochemistrySaitama Cancer Center Research Institute
  • Jun-Ichi Hayashi
    • Department of BiochemistrySaitama Cancer Center Research Institute
  • Hiromichi Yonekawa
    • Department of BiochemistrySaitama Cancer Center Research Institute
  • Yusaku Tagashira
    • Department of BiochemistrySaitama Cancer Center Research Institute
Article

DOI: 10.1007/BF01732497

Cite this article as:
Gotoh, O., Hayashi, J., Yonekawa, H. et al. J Mol Evol (1979) 14: 301. doi:10.1007/BF01732497

Summary

We have developed a theory to estimate the degree of sequence divergence between related DNAs from the comparison of restriction endonuclease recognition sites. Two major improvements have been made upon a similar method reported by Upholt (1977). First, the most probable value is calculated by the collective use of all available data. This reduces intrinsic statistical error and extends the analyzable range of sequence divergence. Second, all variables are redefined so that they have strict mathematical implications. This corrects a serious error arising from the misinterpretation of the meaning of the fraction of conserved cleavage sites. With this refined method, sequence divergence between rat and mouse mitochondrial DNAs (mtDNAs) was calculated to be about 25% substitutions/nucleotide, which is in good agreement with the DNA-DNA hybridization data obtained by Jakovcic et al. (1975). It was also estimated that the three types of rat mtDNAs differ from one another by 0.3 ~1% of total base pairs. These values are 2 ~5 times smaller than those obtained with the conventional method.

Key words

Sequence divergenceRestriction enzymeSite changesMethod of maximum likelihoodRodent mitochondrial DNAs

Copyright information

© Springer-Verlag 1979