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

Laczi, Krisztián and Kis, Ágnes and Horváth, Balázs and Maróti, Gergely and Hegedüs, Botond and Perei, Katalin and Rákhely, Gábor (2015) Metabolic responses of Rhodococcus erythropolis PR4 grown on diesel oil and various hydrocarbons. Applied Microbiology and Biotechnology, 99 (22). pp. 9745-9759. ISSN 0175-7598 (print), 1432-0614 (online)

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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. © 2015, Springer-Verlag Berlin Heidelberg.

Item Type: Article
Additional Information: N1 Funding Details: TÁMOP-4.1.1.C-12/1/KONV-2012-0012, ESF, European Social Fund N1 Funding Details: TÁMOP-4.2.4.A/ 2-11/1-2012-0001, ESF, European Social Fund
Uncontrolled Keywords: upregulation; RNA purification; reverse transcription polymerase chain reaction; protein expression; nonhuman; microbial degradation; mass fragmentography; IRON TRANSPORT; horizontal gene transfer; FERMENTATION; fatty acid synthesis; fatty acid metabolism; enzyme specificity; down regulation; controlled study; comparative study; bacterial strain; bacterial growth; ARTICLE; Phylogenetics; genetic analysis; enzyme activity; Environmental Monitoring; diesel; Cytochrome; bacterium; aromatic hydrocarbon; SIDEROPHORE; hydrocarbon; hexadecane; Exopolysaccharide; diesel fuel; Cytochrome P450; aromatic compound; Acetic Acid; TRANSCRIPTION; Rhodococcus erythropolis; Hydrocarbon biodegradation; Diesel oil; polymerase chain reaction; Paraffins; MIXTURES; microbiology; METABOLISM; HYDROCARBONS; GENES; Gene Expression; fatty acids; Diesel fuels; Cell growth; BIODEGRADATION; BIOCHEMISTRY; Aromatic hydrocarbons; Aromatic compounds; transcriptomics; Simultaneous hydrocarbon biodegradation; Rhodococcus erythropolis PR4; Oxygenases; Metabolic response; Diesel oil decomposition
Subjects: Q Science / természettudomány > QR Microbiology / mikrobiológia
SWORD Depositor: MTMT SWORD
Depositing User: MTMT SWORD
Date Deposited: 11 Feb 2016 07:56
Last Modified: 11 Feb 2016 07:56
URI: http://real.mtak.hu/id/eprint/33246

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