Sequence periodicity of Escherichia coli is concentrated in intergenic regions

Sergey Hosid, Edward N. Trifonov, Alexander Bolshoy

Research output: Contribution to journalArticlepeer-review


Background: Sequence periodicity with a period close to the DNA helical repeat is a very basic genomic property. This genomic feature was demonstrated for many prokaryotic genomes. The Escherichia coli sequences display the period close to 11 base pairs. Results: Here we demonstrate that practically only ApA/TpT dinucleotides contribute to overall dinucleotide periodicity in Escherichia coli. The noncoding sequences reveal this periodicity much more prominently compared to protein-coding sequences. The sequence periodicity of ApC/GpT, ApT and GpC dinucleotides along the Escherichia coli K-12 is found to be located as well mainly within the intergenic regions. Conclusions: The observed concentration of the dinucleotide sequence periodicity in the intergenic regions of E. coli suggests that the periodicity is a typical property of prokaryotic intergenic regions. We suppose that this preferential distribution of dinucleotide periodicity serves many biological functions; first of all, the regulation of transcription.

Original languageEnglish
Article number14
JournalBMC Molecular Biology
StatePublished - 26 Aug 2004

ASJC Scopus subject areas

  • Molecular Biology


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