title: Molecular diversity of katG genes in the soil bacteria Comamonas.
abstract: Three complete katG genes coding for bifunctional catalase-peroxidases (KatGs) from the beta-proteobacterium Comamonas terrigena and two related strains of Comamonas testosteroni have been cloned and sequenced. Catalase-peroxidases are unique bifunctional enzymes known to be expressed in these soil bacteria in response to environmental and/or oxidative stress. The evolutionary and structural diversity of these enzymes is investigated based on multiple sequence alignment and comprehensive phylogenetic analysis. The reconstructed phylogenetic tree and well-known structure-function relationships were applied to inspect the conservation of essential residues. Observed diversity is discussed with respect to the fact that KatGs are distinctive gene-duplicated peroxidases comprising a N-terminal (enzymatically active) and a C-terminal (heme-less) domain. The unique promoter motifs regulating katG transcription in four strains of Comamonas were detected and compared with E. coli katG promoter. The relationship between the promoter sequences and the corresponding expression levels was analyzed. A significant difference in heat shock-inducible catalatic and peroxidatic activities between E. coli K12 and Comamonas terrigena & testosteroni strains was observed. The peculiar variability in gene-coding sequences appears to be more significant for such activity output among Comamonas strains than differences in their promoter regions. The functional role of observed increased diversity in the C-terminal domain is discussed with respect to potential modification of catalytic features at the N-terminal domain that could be relevant for these soil bacteria to cope with stressors.
  
  
  BACKGROUND
  The online version of this article (doi:10.1007/s00203-009-0541-4) contains supplementary material, which is available to authorized users.
authors.affiliation: Institute of Molecular Biology, Slovak Academy of Sciences, Dúbravská cesta 21, 84551 Bratislava, Slovakia.
authors.forename: Jana
authors.initials: J
authors.lastname: Godocíková
authors.forename: Marcel
authors.initials: M
authors.lastname: Zámocký
authors.forename: Mária
authors.initials: M
authors.lastname: Bucková
authors.forename: Christian
authors.initials: C
authors.lastname: Obinger
authors.forename: Bystrík
authors.initials: B
authors.lastname: Polek
mesh_terms: D000595:Amino Acid Sequence; D001426:Bacterial Proteins / Q000737:chemistry* / Q000145:classification / Q000235:genetics*; D020585:Comamonas / Q000145:classification / Q000235:genetics*; D019143:Evolution, Molecular; D008969:Molecular Sequence Data; D010544:Peroxidases / Q000737:chemistry* / Q000145:classification / Q000235:genetics*; D010802:Phylogeny; D011401:Promoter Regions, Genetic / Q000235:genetics; D012641:Selection, Genetic / Q000235:genetics; D017386:Sequence Homology, Amino Acid; D012988:Soil Microbiology
chemical_list: D001426:Bacterial Proteins; D010544:Peroxidases; C081610:catalase-peroxidase, bacteria