Molecular and General Genetics MGG

, Volume 262, Issue 4, pp 721–729

Identification and localization of differences between Escherichia coli and Salmonella typhimurium genomes by suppressive subtractive hybridization

  • M. L. Bogush
  • T. V. Velikodvorskaya
  • Yu. B. Lebedev
  • L. G. Nikolaev
  • S. A. Lukyanov
  • A. F. Fradkov
  • B. K. Pliyev
  • M. N. Boichenko
  • G. N. Usatova
  • A. A. Vorobiev
  • G. L. Andersen
  • E. D. Sverdlov
ORIGINAL PAPER

DOI: 10.1007/s004380051134

Cite this article as:
Bogush, M., Velikodvorskaya, T., Lebedev, Y. et al. Mol Gen Genet (1999) 262: 721. doi:10.1007/s004380051134
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Abstract

The availability of bacterial genome sequences raises an important new problem – how can one move from completely sequenced microorganisms as a reference to the hundreds and thousands of other strains or isolates of the same or related species that will not be sequenced in the near future? An efficient way to approach this task is the comparison of genomes by subtractive hybridization. Recently we developed a sensitive and reproducible subtraction procedure for comparison of bacterial genomes, based on the method of suppression subtractive hybridization (SSH). In this work we demonstrate the applicability of subtractive hybridization to the comparison of the related but markedly divergent bacterial species Escherichia coli and Salmonella typhimurium. Clone libraries representing sequence differences were obtained and, in the case of completely sequenced E. coli genome, the differences were directly placed in the genome map. About 60% of the differential clones identified by SSH were present in one of the genomes under comparison and absent from the other. Additional differences in most cases represent sequences that have diverged considerably in the course of evolution. Such an approach to comparative bacterial genomics can be applied both to studies of interspecies evolution – to elucidate the “strategies” that enable different genomes to fit their ecological niches – and to development of diagnostic probes for the rapid identification of pathogenic bacterial species.

Key wordsEscherichia coli Salmonella typhimurium Subtractive hybridization 

Copyright information

© Springer-Verlag Berlin Heidelberg 1999

Authors and Affiliations

  • M. L. Bogush
    • 1
  • T. V. Velikodvorskaya
    • 1
  • Yu. B. Lebedev
    • 1
  • L. G. Nikolaev
    • 1
  • S. A. Lukyanov
    • 1
  • A. F. Fradkov
    • 1
  • B. K. Pliyev
    • 1
  • M. N. Boichenko
    • 2
  • G. N. Usatova
    • 2
  • A. A. Vorobiev
    • 2
  • G. L. Andersen
    • 3
  • E. D. Sverdlov
    • 1
  1. 1.Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry Russian Academy of Sciences, 117871 Moscow, Russia e-mail: sverd@humgen.siobc.ras.ru Fax: +7-095-3306538RU
  2. 2.Microbiology Department, I. M. Sechenov Medical Academy 119435 Moscow, RussiaRU
  3. 3.Lawrence Livermore National Laboratory, L452 7000 East Avenue, Livermore, CA 94550-9234, USAUS

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