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The effect of zinc limitation on the transcriptome of Pseudomonas protegens Pf-5

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  • Zinc is an important nutrient but can be lacking in some soil environments, influencing the physiology of soil-dwelling bacteria. Hence, we studied the global effect of zinc limitation on the transcriptome of the rhizosphere biocontrol strain Pseudomonas protegens Pf-5 (formerly Pseudomonas fluorescens). We observed that the expression of the putative zinc uptake regulator (Zur) gene was upregulated, and we mapped putative Zur binding sites in the Pf-5 genome using bioinformatic approaches. In line with the need to regulate intracellular zinc concentrations, an array of potential zinc transporter genes was found to be zinc-regulated. To adapt to low-zinc conditions, a gene cluster encoding non-zinc-requiring paralogues of zinc-dependent proteins was also significantly upregulated. Similarly, transcription of genes encoding non-zinc-requiring paralogues of ribosomal proteins L31 and L36 was increased by zinc limitation. A strong transcriptional downregulation of the putative copper chaperone gene (copZ) was also observed, suggesting interplay between zinc and copper homeostasis. Importantly, zinc also affected biocontrol attributes in Pf-5, most notably reducing the expression of the gene cluster responsible for biosynthesis of the antibiotic 2,4-diacetylphloroglucinol (DAPG) under zinc limitation. This study clearly defines changes to the molecular physiology of Pf-5 that enable it to survive under zinc limitation.
  • The published article is copyrighted by Society for Applied Microbiology and Blackwell Publishing Ltd. and can be found at: http://onlinelibrary.wiley.com/
  • Keywords: Bacillus subtilis, Structural analysis, Heavy metal, Carbonic anhydrase, Escherichia coli, Biological control, Fluorescens biocontrol strains, Directed mismatch repair, Exonuclease VII, Outer membrane
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  • Lim, C. K., Hassan, K. A., Penesyan, A., Loper, J. E., & Paulsen, I. T. (2013). The effect of zinc limitation on the transcriptome of pseudomonas protegens Pf‐5. Environmental Microbiology, 15(3), 702-715. doi: 10.1111/j.1462-2920.2012.02849.x
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  • 15
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  • 3
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  • Funding for this study was provided by a Macquarie University Research Excellence Scholarship (C.K.L.) and the Australian Research Council Discovery Grant DP110102680 (I.T.P. and K.A.H.).
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