Journal Article

<i>Mycoplasma hyopneumoniae</i> Transcription Unit Organization: Genome Survey and Prediction

Franciele Maboni Siqueira, Augusto Schrank and Irene Silveira Schrank

in DNA Research

Published on behalf of Kazusa DNA Research Institute

Volume 18, issue 6, pages 413-422
Published in print December 2011 | ISSN: 1340-2838
Published online November 2011 | e-ISSN: 1756-1663 | DOI: http://dx.doi.org/10.1093/dnares/dsr028

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Mycoplasma hyopneumoniae is associated with swine respiratory diseases. Although gene organization and regulation are well known in many prokaryotic organisms, knowledge on mycoplasma is limited. This study performed a comparative analysis of three strains of M. hyopneumoniae (7448, J and 232), with a focus on genome organization and gene comparison for open read frame (ORF) cluster (OC) identification. An in silico analysis of gene organization demonstrated 117 OCs and 34 single ORFs in M. hyopneumoniae 7448 and J, while 116 OCs and 36 single ORFs were identified in M. hyopneumoniae 232. Genomic comparison revealed high synteny and conservation of gene order between the OCs defined for 7448 and J strains as well as for 7448 and 232 strains. Twenty-one OCs were chosen and experimentally confirmed by reverse transcription–PCR from M. hyopneumoniae 7448 genome, validating our prediction. A subset of the ORFs within an OC could be independently transcribed due to the presence of internal promoters. Our results suggest that transcription occurs in ‘run-on’ from an upstream promoter in M. hyopneumoniae, thus forming large ORF clusters (from 2 to 29 ORFs in the same orientation) and indicating a complex transcriptional organization.

Keywords: ORF cluster; intergenic regions; cotranscription; transcriptional units

Journal Article.  5516 words.  Illustrated.

Subjects: Genetics and Genomics

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