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Genomic analysis of the phenylacetyl-CoA pathway in Burkholderia xenovorans LB400

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Abstract

The phenylacetyl-CoA (Paa) catabolic pathway and genome-wide gene expression responses to phenylacetate catabolism were studied in the polychlorinated biphenyl (PCB)-degrading strain Burkholderia xenovorans LB400. Microarray and RT-qPCR analyses identified three non-contiguous chromosomal clusters of genes that are predicted to encode a complete Paa pathway that were induced up to 40-fold during growth of LB400 on phenylacetate: paaGHIJKR, paaANEBDF, and paaC. Comparison of the available genome sequences revealed that this organization is unique to Burkholderiaceae. Parallel proteomic studies identified 7 of the 14 predicted Paa proteins, most of which were detected only in phenylacetate-grown cells, but not in benzoate- or succinate-grown cells. Finally, the transcriptomic and proteomic analyses revealed the induction of at least 7 predicted catabolic pathways of aromatic compounds and some aromatic plant products (phenols, mandelate, biphenyl, C1 compounds, mevalonate, opine, and isoquinoline), as well as an oxidative stress response and a large group of transporters. Most of these genes were not induced during growth on benzoate or biphenyl, suggesting that phenylacetate or a metabolite may act as a signal that triggers multiple physiological processes. Identifying the components of the Paa pathway is important since the pathway appears to contribute to virulence of Burkholderia pathogens.

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Acknowledgments

This work was supported by Genome Canada and an NSERC Discovery Grant to LDE, and by the Superfund Basic Research Program grant P42 ES 04911-20 from the U.S. National Institute of Environmental Health Sciences. Jeff Landgraf assisted with RT-qPCR analysis.

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Author notes

  1. J. Jacob Parnell

    Present address: Center for Integrated BioSystems, Utah State University, Logan, UT, 84321, USA

  2. Michael P. McLeod

    Present address: Texas Institute for Genomic Medicine, Houston, TX, 77030, USA

Authors and Affiliations

  1. Department of Microbiology and Immunology, University of British Columbia, Vancouver, BC, V6T 1Z3, Canada

    Marianna A. Patrauchan, Michael P. McLeod, Christine Florizone & Lindsay D. Eltis

  2. Department of Microbiology and Molecular Genetics, Oklahoma State University, 307 LSE, Stillwater, OK, 74075, USA

    Marianna A. Patrauchan

  3. Center for Microbial Ecology, Michigan State University, East Lansing, MI, 48824, USA

    J. Jacob Parnell & James M. Tiedje

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  1. Marianna A. Patrauchan
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Correspondence to Marianna A. Patrauchan.

Additional information

Communicated by Shuang-Jiang Liu.

The authors Marianna A. Patrauchan and J. Jacob Parnell contributed equally.

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Patrauchan, M.A., Parnell, J.J., McLeod, M.P. et al. Genomic analysis of the phenylacetyl-CoA pathway in Burkholderia xenovorans LB400. Arch Microbiol 193, 641–650 (2011). https://doi.org/10.1007/s00203-011-0705-x

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  • DOI: https://doi.org/10.1007/s00203-011-0705-x

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