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σI from Bacillus subtilis: Impact on Gene Expression and Characterization of σI-Dependent Transcription That Requires New Types of Promoters with Extended -35 and -10 Elements.
Ramaniuk, Olga; Prevorovský, Martin; Pospísil, Jirí; Vítovská, Dragana; Kofronová, Olga; Benada, Oldrich; Schwarz, Marek; Sanderová, Hana; Hnilicová, Jarmila; Krásný, Libor.
Afiliación
  • Ramaniuk O; Laboratory of Microbial Genetics and Gene Expression, Institute of Microbiology of the Czech Academy of Sciences, Prague, Czech Republic.
  • Prevorovský M; Department of Genetics and Microbiology, Faculty of Science, Charles University, Prague, Czech Republic.
  • Pospísil J; Department of Cell Biology, Faculty of Science, Charles University, Prague, Czech Republic.
  • Vítovská D; Laboratory of Microbial Genetics and Gene Expression, Institute of Microbiology of the Czech Academy of Sciences, Prague, Czech Republic.
  • Kofronová O; Laboratory of Microbial Genetics and Gene Expression, Institute of Microbiology of the Czech Academy of Sciences, Prague, Czech Republic.
  • Benada O; Laboratory of Molecular Structure Characterization, Institute of Microbiology of the Czech Academy of Sciences, Prague, Czech Republic.
  • Schwarz M; Laboratory of Molecular Structure Characterization, Institute of Microbiology of the Czech Academy of Sciences, Prague, Czech Republic.
  • Sanderová H; Laboratory of Bioinformatics, Institute of Microbiology of the Czech Academy of Sciences, Prague, Czech Republic.
  • Hnilicová J; Laboratory of Microbial Genetics and Gene Expression, Institute of Microbiology of the Czech Academy of Sciences, Prague, Czech Republic.
  • Krásný L; Laboratory of Microbial Genetics and Gene Expression, Institute of Microbiology of the Czech Academy of Sciences, Prague, Czech Republic.
J Bacteriol ; 200(17)2018 09 01.
Article en En | MEDLINE | ID: mdl-29914988
The σI sigma factor from Bacillus subtilis is a σ factor associated with RNA polymerase (RNAP) that was previously implicated in adaptation of the cell to elevated temperature. Here, we provide a comprehensive characterization of this transcriptional regulator. By transcriptome sequencing (RNA-seq) of wild-type (wt) and σI-null strains at 37°C and 52°C, we identified ∼130 genes affected by the absence of σI Further analysis revealed that the majority of these genes were affected indirectly by σI The σI regulon, i.e., the genes directly regulated by σI, consists of 16 genes, of which eight (the dhb and yku operons) are involved in iron metabolism. The involvement of σI in iron metabolism was confirmed phenotypically. Next, we set up an in vitro transcription system and defined and experimentally validated the promoter sequence logo that, in addition to -35 and -10 regions, also contains extended -35 and -10 motifs. Thus, σI-dependent promoters are relatively information rich in comparison with most other promoters. In summary, this study supplies information about the least-explored σ factor from the industrially important model organism B. subtilisIMPORTANCE In bacteria, σ factors are essential for transcription initiation. Knowledge about their regulons (i.e., genes transcribed from promoters dependent on these σ factors) is the key for understanding how bacteria cope with the changing environment and could be instrumental for biotechnologically motivated rewiring of gene expression. Here, we characterize the σI regulon from the industrially important model Gram-positive bacterium Bacillus subtilis We reveal that σI affects expression of ∼130 genes, of which 16 are directly regulated by σI, including genes encoding proteins involved in iron homeostasis. Detailed analysis of promoter elements then identifies unique sequences important for σI-dependent transcription. This study thus provides a comprehensive view on this underexplored component of the B. subtilis transcription machinery.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Factor sigma / Bacillus subtilis / Transcripción Genética / ARN Polimerasas Dirigidas por ADN / Regulación Bacteriana de la Expresión Génica / Regiones Promotoras Genéticas Tipo de estudio: Prognostic_studies Idioma: En Revista: J Bacteriol Año: 2018 Tipo del documento: Article País de afiliación: República Checa Pais de publicación: Estados Unidos

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Factor sigma / Bacillus subtilis / Transcripción Genética / ARN Polimerasas Dirigidas por ADN / Regulación Bacteriana de la Expresión Génica / Regiones Promotoras Genéticas Tipo de estudio: Prognostic_studies Idioma: En Revista: J Bacteriol Año: 2018 Tipo del documento: Article País de afiliación: República Checa Pais de publicación: Estados Unidos