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Related Experiment Videos

DNA microenvironments and the molecular clock.

C Saccone1, G Pesole, G Preparata

  • 1Centro Studi sui Mitocondri e Metabolismo Energetico, CNR, Università di Bari, Italy.

Journal of Molecular Evolution
|November 1, 1989
PubMed
Summary
This summary is machine-generated.

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Stationary homologous genes within the same isochore are reliable molecular clocks. Nonstationary genes show higher evolutionary rates, questioning rodent acceleration claims.

Area of Science:

  • Genomics
  • Molecular Evolution
  • Bioinformatics

Background:

  • A stationary Markov model for gene evolution was previously proposed, identifying conditions for reliable molecular clocks.
  • A compartmentalized nuclear genome model, based on isochores defined by G+C content, has been recently introduced.

Purpose of the Study:

  • To investigate the reliability of homologous gene pairs as molecular clocks within the context of isochores.
  • To assess the impact of gene stationarity and isochore membership on determining phylogeny and base substitution rates.
  • To evaluate recent claims of accelerated molecular evolution in rodents.

Main Methods:

  • Analysis of homologous gene pairs from species with varying divergence levels.
  • Application of a compartmentalized genome model considering isochores and G+C content.

Related Experiment Videos

  • Comparison of evolutionary rates between stationary and nonstationary genes, particularly at the third silent codon position.

    • Main Results:

    • Only stationary homologous gene pairs belonging to the same isochore consistently determine phylogeny and substitution rates.
    • Approximately half of homologous gene pairs between rodents and humans were found to be stationary.
    • Stationary genes exhibit consistent evolutionary velocity at the third silent codon position, irrespective of gene or base composition.
    • Nonstationary genes display significantly higher apparent evolutionary rates (pseudovelocities).

    Conclusions:

    • The study validates the importance of gene stationarity and isochore membership for accurate molecular clock applications.
    • Findings suggest that nonstationary genes may lead to erroneous conclusions regarding evolutionary rates.
    • The results cast doubt on recent assertions of a substantial acceleration in rodent molecular evolution.