Abstract
Rhodococcus pyridinivorans B403 is a promising bacterium for degrading phenolic pollutants. In the application, the high-concentration substrate has a significant inhibitory effect on cell growth and phenol degradation, which makes adaptive evolution study of bacteria an important guarantee for further application. The present work found evolved R. pyridinivorans (X1 and X2) had enhanced tolerance to phenolic pollutants as compared to the ancestor strain: the minimum inhibitory concentrations (MIC) of phenol, m-cresol, and catechol increased from 1.2, 0.7, 0.8 g/L to 1.8, 1.0, 1.2 g/L of strain X1, and to 2.4, 1.2, 1.4 g/L of strain X2, respectively. Furthermore, compared to B403, X1, and X2 accumulated more biomass in 500-mg/L cresol medium and degraded phenols more efficiently. Correspondingly, genome sequencing revealed that the mutation sites in genes were annotated as encoding phosphotransferase, MFS transporter, AcrR regulator, and GlpD regulator in the adapted strains, which were closely associated with improved phenol tolerance and degradation. The conclusions provided theoretical basis for the phenol tolerance and degradation, which could promote construction of engineering bacteria for practical application.
Key points
• Evolved strains were more resistant to phenols
• Evolved strains degraded phenols more quickly
• Genome sequencing elucidated mechanisms of enhanced phenol tolerance and degradation
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Data availability
Statement Raw sequence data of strains B403, X1, and X2 have been deposited in the NCBI Short Read Archive under accession number PRJNA687595, SRX9840402, and SRX9840403.
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Authors would like to thank Editage (www.editage.cn) for English language editing.
Funding
This work was supported by China National Key R&D Program (2020YFA0908400; 2019YFA0905000), the Science and Technology Innovation Program of Hubei Province (2020BBA056; 2019ABA117), the Central Committee Guides Local Science and Technology Development Projects (2018ZYYD034), and the Wuhan Science and Technology Plan (2019020701011496).
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Conceptualization: H. T. Song and Z. B. Jiang.; methodology: M. Ye and Z. B. Jiang; software: F. Peng; validation: M. Ye; formal analysis: M.Y e, T. Y. Zhang, A. H. Luo; investigation: M. Ye; resources: M. Ye; data curation: M. Ye and F. Peng; writing—original draft preparation: M. Ye and F. Peng; writing—review and editing: F. Peng and H. T. Song; visualization: M. Ye and F. Peng; supervision: J. S. Liu Y. F. Liu and Y. Lan; project administration: Z. B. Jiang; funding acquisition: H. T. Song and Z. B. Jiang. All the authors have read and agreed to the published version of the manuscript.
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Peng, F., Ye, M., Liu, Y. et al. Comparative genomics reveals response of Rhodococcus pyridinivorans B403 to phenol after evolution. Appl Microbiol Biotechnol 106, 2751–2761 (2022). https://doi.org/10.1007/s00253-022-11858-6
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DOI: https://doi.org/10.1007/s00253-022-11858-6