Transcriptional regulators of GntR family in Streptomyces coelicolor A3(2): analysis in silico and in vivo of YtrA subfamily
Language English Country United States Media print-electronic
Document type Journal Article, Research Support, Non-U.S. Gov't
PubMed
26433722
DOI
10.1007/s12223-015-0426-7
PII: 10.1007/s12223-015-0426-7
Knihovny.cz E-resources
- MeSH
- Anti-Bacterial Agents biosynthesis MeSH
- Bacterial Proteins genetics metabolism MeSH
- Databases, Genetic MeSH
- DNA-Binding Proteins genetics metabolism MeSH
- Phenotype MeSH
- Phylogeny MeSH
- Transcription, Genetic * MeSH
- Genome, Bacterial MeSH
- Gene Knockout Techniques MeSH
- Glucuronidase metabolism MeSH
- Multigene Family * MeSH
- Open Reading Frames MeSH
- Gene Expression Regulation, Bacterial * MeSH
- Streptomyces coelicolor classification genetics metabolism MeSH
- Transcription Factors metabolism MeSH
- Computational Biology methods MeSH
- Publication type
- Journal Article MeSH
- Research Support, Non-U.S. Gov't MeSH
- Names of Substances
- Anti-Bacterial Agents MeSH
- Bacterial Proteins MeSH
- DNA-Binding Proteins MeSH
- Glucuronidase MeSH
- Transcription Factors MeSH
Transcriptional factors of the GntR family regulate numerous physiological and morphological processes in response to the nutrient state of bacterial cells. The number of GntR transcriptional factors in genomes of soil-dwelling actinomycetes is one of the highest among bacteria, reflecting both the large size of their chromosomes and the complex ecological niche that they occupy. However, very little is known about the roles of GntRs in actinomycete biology. Here, we analyzed the genome of model actinomycete, Streptomyces coelicolor A3(2), in an attempt to gain new insights into the function of GntR family. All 56 GntR proteins of M145 strain were classified into FadR, HutC, MocR, YtrA, and DevA subfamilies according to their secondary structure. We then checked for the presence of GntR orthologs in six other sequenced Streptomyces and one Kitasatospora genomes, revealing that 12 GntRs were conserved in all analyzed strains. Genomic analysis of the less studied YtrA type regulators revealed 160 sequences present in 88 members of Coriobacteridae, Rubrobacteridae, and Actinobacteridae subclasses. These proteins form seven dense clusters on the consensus phylogenetic tree and their genes are usually co-located with the genes for transport proteins. Probable operator sites were identified for orthologous groups of Sco0823 and Sco3812 proteins. All S. coelicolor YtrA-like regulatory genes (SCO0823, SCO1728, SCO3812) were analyzed at transcriptional level, knocked out, and introduced on moderate copy number plasmid in M145 strain. Also, gene SCO0824, a part of putative SCO0823 operon, was studied. Results of these experiments are discussed here.
Department of Biology Lund University Lund 22362 Sweden
Department of Microbiology and Immunobiology Harvard Medical School Boston MA 02115 USA
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