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Microbiology 145 (1999), 915-924; DOI  10.1099/13500872-145-4-915
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Structure and organization of the rrnD operon of ‘Brevibacterium lactofermentum’: analysis of the 16S rRNA gene

Eladio Amador1, José M. Castro1, Antonio Correia2 and Juan F. Martín1

Area of Microbiology, Department of Ecology, Genetics and Microbiology, Faculty of Biology, University of León, 24071 León, Spain
Area de Microbiologia, Dpt. de Biologia, Universidade de Aveiro, 3800 Aveiro, Portugal

Author for correspondence: Juan F. Martín. Tel: +34 987 291505. Fax: +34 987 291506. e-mail: degjmm@isidoro.unileon.es

ABSTRACT

Summary: Five rRNA operons (rrn) were found by hybridization in the genome of ‘Brevibacterium lactofermentum’ ATCC 13869 and Corynebacterium glutamicum ATCC 13032. ‘B. lactofermentum’ DSM 20412 differed from the other corynebacteria tested in showing six hybridizing BamHI bands. Two of the rrn operons (rrnD and rrnE) were located in a single cosmid. Sequencing of the rrnD operon showed that it contains a complete 16S rRNA-23S RNA-55 rRNA gene cluster. Phylogenetic studies using the complete 16S rRNA sequence showed that ‘B. lactofermentum’ is closely related to several species of the genus Corynebacterium but only distantly related to the type species Brevibacterium linens and the authors suggest that it should be reclassified as Corynebacterium lactofermentum. The 5' end of mature 16S rRNA was identified by primer extension. Sequence elements similar to those of mycobacteria implicated in transcription antitermination (Boxes A, B, C) and in processing of the pre-rRNA to 16S rRNA were identified. An open reading frame encoding an rpoD-like sigma factor (named SigC) different from the previously reported SigA and SigB proteins was found upstream of rrnD in the opposite orientation. Both rpoD and sigC seem to be expressed from a bidirectional promoter region.

Keywords: corynebacteria, rRNA, clusters, expression, sigma factor




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