Conservation of DNA curvature signals in regulatory regions of prokaryotic genes.
DNA curvature plays a well-characterized role in many transcriptional regulation mechanisms. We present evidence for the conservation of curvature signals in putative regulatory regions of several archaeal and eubacterial genomes. Genes with highly curved upstream regions were identified in orthologous groups, based on the annotations of the Cluster of Orthologous Groups of proteins (COG) database. COGs possessing a significant number of genes with curvature signals were analyzed, and conserved properties were found in several cases. Curvature signals related to regulatory sites, previously described in single organisms, were located in a broad spectrum of bacterial genomes. Global regulatory proteins, such as HU, IHF and FIS, known to bind to curved DNA and to be autoregulated, were found to present conserved DNA curvature signals in their regulatory regions, emphasizing the fact that structural parameters of the DNA molecule are conserved elements in the process of transcriptional regulation of some systems. It is currently an open question whether these diverse systems are part of an integrated global regulatory response in different microorganisms.
Jáuregui
Ruy
R
Instituto de Biotecnología, Universidad Nacional Autónoma de México, Av. Universidad 2001, Chamilpa, Cuernavaca Mor., 62210 México.
Abreu-Goodger
Cei
C
Moreno-Hagelsieb
Gabriel
G
Collado-Vides
Julio
J
Merino
Enrique
E
D002455:Cell Division / Q000235:genetics; D017124:Conserved Sequence / Q000235:genetics; D027081:DNA Gyrase / Q000235:genetics; D019641:DNA, Archaeal / Q000737:chemistry* / Q000378:metabolism; D004269:DNA, Bacterial / Q000737:chemistry* / Q000378:metabolism; D035021:Factor For Inversion Stimulation Protein / Q000235:genetics; D005407:Flagella / Q000235:genetics; D019848:Gene Expression Regulation, Archaeal; D015964:Gene Expression Regulation, Bacterial; D019766:Genes, Archaeal / Q000235:genetics*; D005798:Genes, Bacterial / Q000235:genetics*; D020745:Genome, Archaeal; D016680:Genome, Bacterial; D023281:Genomics; D005974:Glutamate-Ammonia Ligase / Q000235:genetics; D009690:Nucleic Acid Conformation; D011387:Prokaryotic Cells / Q000378:metabolism*; D011401:Promoter Regions, Genetic / Q000235:genetics; D012045:Regulatory Sequences, Nucleic Acid / Q000235:genetics*; D019895:Transposases / Q000235:genetics
D019641:DNA, Archaeal; D004269:DNA, Bacterial; D035021:Factor For Inversion Stimulation Protein; D019895:Transposases; D027081:DNA Gyrase; D005974:Glutamate-Ammonia Ligase