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Mechanisms generating long-range correlation in nucleotide composition of the Borrelia burgdorferi genome

Author

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  • Mackiewicz, P.
  • Gierlik, A.
  • Kowalczuk, M.
  • Szczepanik, D.
  • Dudek, M.R.
  • Cebrat, S.

Abstract

We have analysed protein coding and intergenic sequences in the Borrelia burgdorferi (the Lyme disease bacterium) genome using different kinds of DNA walks. Genes occupying the leading strand of DNA have significantly different nucleotide composition from genes occupying the lagging strand. Nucleotide compositional bias of the two DNA strands reflects the aminoacid composition of proteins. 96% of genes coding for ribosomal proteins lie on the leading DNA strand, which suggests that the positions of these as well as other genes are non-random. In the B. burgdorferi genome, the asymmetry in intergenic DNA sequences is lower than the asymmetry in the third positions in codons. All these characters of the B. burgdorferi genome suggest that both replication-associated mutational pressure and recombination mechanisms have established the specific structure of the genome and now any recombination leading to inversion of a gene in respect to the direction of replication is forbidden. This property of the genome allows us to assume that it is in a steady state, which enables us to fix some parameters for simulations of DNA evolution.

Suggested Citation

  • Mackiewicz, P. & Gierlik, A. & Kowalczuk, M. & Szczepanik, D. & Dudek, M.R. & Cebrat, S., 1999. "Mechanisms generating long-range correlation in nucleotide composition of the Borrelia burgdorferi genome," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 273(1), pages 103-115.
    • Handle: RePEc:eee:phsmap:v:273:y:1999:i:1:p:103-115
    DOI: 10.1016/S0378-4371(99)00345-3
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    Cited by:

    1. Licinio, P & Caligiorne, R.B, 2004. "Inference of phylogenetic distances from DNA-walk divergences," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 341(C), pages 471-481.
    2. Machado Filho, A. & da Silva, M.F. & Zebende, G.F., 2014. "Autocorrelation and cross-correlation in time series of homicide and attempted homicide," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 400(C), pages 12-19.

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