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Metabolic responses of Rhodococcus erythropolis PR4 grown on diesel oil and various hydrocarbons

  • Genomics, transcriptomics, proteomics
  • Published:
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Abstract

Rhodococcus erythropolis PR4 is able to degrade diesel oil, normal-, iso- and cycloparaffins and aromatic compounds. The complete DNA content of the strain was previously sequenced and numerous oxygenase genes were identified. In order to identify the key elements participating in biodegradation of various hydrocarbons, we performed a comparative whole transcriptome analysis of cells grown on hexadecane, diesel oil and acetate. The transcriptomic data for the most prominent genes were validated by RT-qPCR. The expression of two genes coding for alkane-1-monooxygenase enzymes was highly upregulated in the presence of hydrocarbon substrates. The transcription of eight phylogenetically diverse cytochrome P450 (cyp) genes was upregulated in the presence of diesel oil. The transcript levels of various oxygenase genes were determined in cells grown in an artificial mixture, containing hexadecane, cycloparaffin and aromatic compounds and six cyp genes were induced by this hydrocarbon mixture. Five of them were not upregulated by linear and branched hydrocarbons. The expression of fatty acid synthase I genes was downregulated by hydrocarbon substrates, indicating the utilization of external alkanes for fatty acid synthesis. Moreover, the transcription of genes involved in siderophore synthesis, iron transport and exopolysaccharide biosynthesis was also upregulated, indicating their important role in hydrocarbon metabolism. Based on the results, complex metabolic response profiles were established for cells grown on various hydrocarbons. Our results represent a functional annotation of a rhodococcal genome, provide deeper insight into molecular events in diesel/hydrocarbon utilization and suggest novel target genes for environmental monitoring projects.

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Acknowledgments

This research was supported by the European Union and co-financed by the European Social Fund (grant agreement no.: TÁMOP-4.2.4.A/ 2-11/1-2012-0001 ‘National Excellence Program’, TÁMOP-4.1.1.C-12/1/KONV-2012-0012) and by the Norway Grant (grant agreement no. HU09-0044-A1-2013).

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Funding

This study was funded by the European Union and co-financed by the European Social Fund (grant agreement no.: TÁMOP-4.2.4.A/ 2-11/1-2012-0001 ‘National Excellence Program’ (Krisztián Laczi); and TÁMOP-4.1.1.C-12/1/KONV-2012-0012) and by the Norway Grant (grant agreement no. HU09-0044-A1-2013).

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  1. Department of Biotechnology, University of Szeged, Közép fasor 52, H-6726, Szeged, Hungary

    Krisztián Laczi, Ágnes Kis, Botond Hegedüs, Katalin Perei & Gábor Rákhely

  2. Institute of Biophysics, Biological Research Centre Hungarian Academy of Sciences, Temesvári krt 62, H-6726, Szeged, Hungary

    Gábor Rákhely

  3. Institute of Biochemistry, Biological Research Centre Hungarian Academy of Sciences, Temesvári krt 62, H-6726, Szeged, Hungary

    Balázs Horváth & Gergely Maróti

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  1. Krisztián Laczi
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Laczi, K., Kis, Á., Horváth, B. et al. Metabolic responses of Rhodococcus erythropolis PR4 grown on diesel oil and various hydrocarbons. Appl Microbiol Biotechnol 99, 9745–9759 (2015). https://doi.org/10.1007/s00253-015-6936-z

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