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Applied and Environmental Microbiology, November 2006, p. 7156-7167, Vol. 72, No. 11
0099-2240/06/$08.00+0     doi:10.1128/AEM.01397-06
Copyright © 2006, American Society for Microbiology. All Rights Reserved.

An Integrated Approach to Functional Genomics: Construction of a Novel Reporter Gene Fusion Library for Sinorhizobium meliloti{triangledown} ,{dagger}

Alison Cowie, Jiujun Cheng, Christopher D. Sibley, Ying Fong, Rahat Zaheer, Cheryl L. Patten, Richard M. Morton, G. Brian Golding, and Turlough M. Finan*

Center for Environmental Genomics, Department of Biology, McMaster University, Hamilton, Ontario L8S 4K1, Canada

Received 16 June 2006/ Accepted 29 August 2006

As a means of investigating gene function, we developed a robust transcription fusion reporter vector to measure gene expression in bacteria. The vector, pTH1522, was used to construct a random insert library for the Sinorhizobium meliloti genome. pTH1522 replicates in Escherichia coli and can be transferred to, but cannot replicate in, S. meliloti. Homologous recombination of the DNA fragments cloned in pTH1522 into the S. meliloti genome generates transcriptional fusions to either the reporter genes gfp+ and lacZ or gusA and rfp, depending on the orientation of the cloned fragment. Over 12,000 fusion junctions in 6,298 clones were identified by DNA sequence analysis, and the plasmid clones were recombined into S. meliloti. Reporter enzyme activities following growth of these recombinants in complex medium (LBmc) and in minimal medium with glucose or succinate as the sole carbon source allowed the identification of genes highly expressed under one or more growth condition and those expressed at very low to background levels. In addition to generating reporter gene fusions, the vector allows Flp recombinase-directed deletion formation and gene disruption, depending on the nature of the cloned fragment. We report the identification of genes essential for growth on complex medium as deduced from an inability to recover recombinants from pTH1522 clones that carried fragments internal to gene or operon transcripts. A database containing all the gene expression activities together with a web interface showing the precise locations of reporter fusion junctions has been constructed (www.sinorhizobium.org).

* Corresponding author. Mailing address: Center for Environmental Genomics, Department of Biology, McMaster University, Hamilton, Ontario L8S 4K1, Canada. Phone: (905) 525-9140. Fax: (905) 522-6066. E-mail: finan{at}mcmaster.ca.

{triangledown} Published ahead of print on 8 September 2006.

{dagger} Supplemental material for this article may be found at http://aem.asm.org/.

Applied and Environmental Microbiology, November 2006, p. 7156-7167, Vol. 72, No. 11
0099-2240/06/$08.00+0     doi:10.1128/AEM.01397-06
Copyright © 2006, American Society for Microbiology. All Rights Reserved.



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