Computer analysis of regulatory signals in complete bacterial genomes. PurR binding sites

A. A. Mironov, M. S. Gelfand

Research output: Contribution to journalArticlepeer-review

5 Citations (Scopus)

Abstract

Recognition of transcription regulatory sites is one of the most difficult problems of computational molecular biology. Small sample size and weak conservativity of signals in most cases do not allow for construction of reliable recognition rules. Here we suggest a new approach to this problem based on simultaneous analysis of several related genomes. Therewith we assume that groups of coregulated genes are evolutionarily stable. Thus we choose in each genome a set of genes having strong candidate sites in regulatory regions and then select families of related genes. By the assumption, these families are subject to the considered regulation. This approach was applied to analysis of purine regulons in Escherichia coli and Haemophilus influenzae. Transcription of these genes is regulated by PurR. We have identified PurR binding sites in the genome of H. influenzae and found a new family of E. coli and H. influenzae transport proteins regulated by PurR.

Original languageEnglish
Pages (from-to)109-114
Number of pages6
JournalMolecular Biology
Volume33
Issue number1
Publication statusPublished - Jan 1999
Externally publishedYes

Keywords

  • Complete genomes
  • Computer analysis
  • Escherichia coli
  • Functional sites
  • Haemophilus influenzae
  • PurR
  • Transport proteins

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