title: Identification and localization of differences between Escherichia coli and Salmonella typhimurium genomes by suppressive subtractive hybridization.
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.
authors.affiliation: Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow.
authors.forename: M L
authors.initials: ML
authors.lastname: Bogush
authors.forename: T V
authors.initials: TV
authors.lastname: Velikodvorskaya
authors.forename: Y B
authors.initials: YB
authors.lastname: Lebedev
authors.forename: L G
authors.initials: LG
authors.lastname: Nikolaev
authors.forename: S A
authors.initials: SA
authors.lastname: Lukyanov
authors.forename: A F
authors.initials: AF
authors.lastname: Fradkov
authors.forename: B K
authors.initials: BK
authors.lastname: Pliyev
authors.forename: M N
authors.initials: MN
authors.lastname: Boichenko
authors.forename: G N
authors.initials: GN
authors.lastname: Usatova
authors.forename: A A
authors.initials: AA
authors.lastname: Vorobiev
authors.forename: G L
authors.initials: GL
authors.lastname: Andersen
authors.forename: E D
authors.initials: ED
authors.lastname: Sverdlov
mesh_terms: D001483:Base Sequence; D017931:DNA Primers; D004926:Escherichia coli / Q000235:genetics*; D016680:Genome, Bacterial; D009693:Nucleic Acid Hybridization; D012486:Salmonella typhimurium / Q000235:genetics*; D013382:Subtraction Technique
chemical_list: D017931:DNA Primers