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Codon usage trajectories and 7-cluster structure of 143 complete bacterial genomic sequences

Author

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  • Gorban, Alexander
  • Popova, Tatyana
  • Zinovyev, Andrey

Abstract

Three results are presented. First, we prove the existence of a universal 7-cluster structure in all 143 completely sequenced bacterial genomes available in Genbank in August 2004, and explained its properties. The 7-cluster structure is responsible for the main part of sequence heterogeneity in bacterial genomes. In this sense, our 7 clusters is the basic model of bacterial genome sequence. We demonstrated that there are four basic “pure” types of this model, observed in nature: “parallel triangles”, “perpendicular triangles”, degenerated case and the flower-like type.

Suggested Citation

  • Gorban, Alexander & Popova, Tatyana & Zinovyev, Andrey, 2005. "Codon usage trajectories and 7-cluster structure of 143 complete bacterial genomic sequences," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 353(C), pages 365-387.
    • Handle: RePEc:eee:phsmap:v:353:y:2005:i:c:p:365-387
    DOI: 10.1016/j.physa.2005.01.043
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    Cited by:

    1. Li, Dirson Jian & Zhang, Shengli, 2009. "Genetic code evolution as an initial driving force for molecular evolution," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 388(18), pages 3809-3825.
    2. Frappat, L. & Sciarrino, A., 2006. "Conspiracy in bacterial genomes," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 369(2), pages 699-713.

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