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Temporal changes in phosphoglycerate kinase coding sequences: a quantitative measure.

Sujay Chattopadhyay1, Jayprokas Chakrabarti

  • 1Department of Theoretical Physics, Indian Association for the Cultivation of Science, Calcutta 700 032, India.tpsc@mahendra.iacs.res.in

Journal of Computational Biology : a Journal of Computational Molecular Cell Biology
|April 5, 2003
PubMed
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A novel quantitative measure for DNA evolution was developed using nucleotide ratios. This measure showed a consistent increase with evolution in the phosphoglycerate kinase gene across bacteria.

Area of Science:

  • Molecular Biology
  • Evolutionary Biology
  • Genomics

Background:

  • Understanding the quantitative measures of DNA evolution is crucial for evolutionary biology.
  • The phosphoglycerate kinase (PGK) gene is a key metabolic enzyme with conserved functions across species.

Purpose of the Study:

  • To propose and apply a new quantitative measure for assessing evolution in coding DNA sequences.
  • To investigate the evolutionary patterns of the phosphoglycerate kinase gene using this novel measure.

Main Methods:

  • Development of a quantitative measure based on the ratio of the average square of nucleotide counts to that of a random sequence.
  • Application of this measure to the coding DNA sequences of the phosphoglycerate kinase gene.
  • Analysis of evolutionary trends in bacterial PGK genes.

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Main Results:

  • A monotonic rise in the proposed evolutionary ratio was observed with increasing evolution in the phosphoglycerate kinase gene.
  • The developed measure effectively quantifies evolutionary changes in coding DNA.

Conclusions:

  • The proposed nucleotide ratio serves as a reliable quantitative indicator of DNA evolution.
  • The phosphoglycerate kinase gene exhibits a clear evolutionary trajectory in bacteria as revealed by this measure.