Transcriptome analysis of the mobile genome ICEclc in Pseudomonas knackmussii B13

BMC Microbiology

Research Article

Muriel Gaillard¹  Marco Minoia¹  Vladimir Sentchilo¹  Jan Roelof van der Meer¹  Nicolas Pradervand¹  David R Johnson² 

[1] Department of Fundamental Microbiology, University of Lausanne, Bâtiment Biophore, 1015 Lausanne, Quartier UNI-Sorge, Switzerland;Department of Fundamental Microbiology, University of Lausanne, Bâtiment Biophore, 1015 Lausanne, Quartier UNI-Sorge, Switzerland;Institute of Biogeochemistry and Pollutant Dynamics, ETHZ, Zürich, and Department of Environmental Microbiology, Eawag, Dübendorf, Switzerland;

关键词: Microarray Hybridization;    Northern Hybridization;    Stationary Phase Cell;    Conjugative Plasmid;    Polycistronic mRNA;   

DOI  :  10.1186/1471-2180-10-153

 received in 2010-03-08, accepted in 2010-05-26,  发布年份 2010

来源: Springer

【 摘 要 】

BackgroundIntegrative and conjugative elements (ICE) form a diverse group of DNA elements that are integrated in the chromosome of the bacterial host, but can occasionally excise and horizontally transfer to a new host cell. ICE come in different families, typically with a conserved core for functions controlling the element's behavior and a variable region providing auxiliary functions to the host. The ICEclc element of Pseudomonas knackmussii strain B13 is representative for a large family of chromosomal islands detected by genome sequencing approaches. It provides the host with the capacity to degrade chloroaromatics and 2-aminophenol.ResultsHere we study the transcriptional organization of the ICEclc core region. By northern hybridizations, reverse-transcriptase polymerase chain reaction (RT-PCR) and Rapid Amplification of cDNA Ends (5'-RACE) fifteen transcripts were mapped in the core region. The occurrence and location of those transcripts were further confirmed by hybridizing labeled cDNA to a semi-tiling micro-array probing both strands of the ICEclc core region. Dot blot and semi-tiling array hybridizations demonstrated most of the core transcripts to be upregulated during stationary phase on 3-chlorobenzoate, but not on succinate or glucose.ConclusionsThe transcription analysis of the ICEclc core region provides detailed insights in the mode of regulatory organization and will help to further understand the complex mode of behavior of this class of mobile elements. We conclude that ICEclc core transcription is concerted at a global level, more reminiscent of a phage program than of plasmid conjugation.

【 授权许可】

Unknown   
© Gaillard et al; licensee BioMed Central Ltd. 2010. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.