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The conversion of the nutrient condition alter the phenol degradation pathway by Rhodococcus biphenylivorans B403: A comparative transcriptomic and proteomic approach

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Abstract

Highly toxic phenol causes a threat to the ecosystem and human body. The development of bioremediation is a crucial issue in environmental protection. Herein, Rhodococcus biphenylivorans B403, which was isolated from the activated sludge of the sewage treatment plant, exhibited a good tolerance and removal efficiency to phenol. The degradation efficiency of phenol increased up to 62.27% in the oligotrophic inorganic medium (MM) containing 500-mg/L phenol at 18 h. R. biphenylivorans B403 cultured in the MM medium showed a higher phenol degradation efficiency than that in the eutrophic LB medium. On the basis of the transcriptomic and proteomic analysis, a total of 799 genes and 123 proteins showed significantly differential expression between two different culture conditions, especially involved in phenol degradation, carbon metabolism, and nitrogen metabolism. R. biphenylivorans B403 could alter the phenol degradation pathway by facing different culture conditions. During the phenol removal in the oligotrophic inorganic medium, muconate cycloisomerase, acetyl-CoA acyltransferase, and catechol 1,2-dioxygenase in the ortho-pathway for phenol degradation showed upregulation compared with those in the eutrophic organic medium. Our study provides novel insights into the possible pathway underlying the response of bacterium to environmental stress for phenol degradation.

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Acknowledgements

This work was supported by China National Key R&D Program (2020YFA0908400; 2019YFA090500), 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).

Availability of data and materials

The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.

Funding

China National Key R&D Program (2020YFA0908400)

China National Key R&D Program (2019YFA090500)

Science and Technology Innovation Program of Hubei Province (2020BBA056)

Science and Technology Innovation Program of Hubei Province (2019ABA117)

Central Committee Guides Local Science and Technology Development Projects (2018ZYYD034)

Wuhan Science and Technology Plan (2019020701011496)

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Author notes

  1. Xiaohang Xie and Jiashu Liu contributed equally to this work.

Authors and Affiliations

  1. State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei University, Wuhan, 430062, China

    Xiaohang Xie, Jiashu Liu, Zhengbing Jiang, Huanan Li, Meng Ye, Hong Pan, Jingwei Zhu & Huiting Song

  2. Hubei Key Laboratory of Regional Development and Environmental Response, School of Resources and Environmental Science, Hubei University, Wuhan, 430062, China

    Xiaohang Xie, Meng Ye, Hong Pan, Jingwei Zhu & Huiting Song

  3. Hubei Key Laboratory of Industrial Biotechnology, School of Life Science, Hubei University, Wuhan, 430062, China

    Jiashu Liu, Zhengbing Jiang & Huanan Li

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  1. Xiaohang Xie
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Contributions

Conceptualization, Zhengbing Jiang and Huiting Song; data curation, Xiaohang Xie and Jiashu Liu; formal analysis, Xiaohang Xie; funding acquisition, Zhengbing Jiang; investigation, Xiaohang Xie and Hong Pan; methodology, Xiaohang Xie, Huanan Li, and Meng Ye; project administration, Zhengbing Jiang and Huiting Song; resources, Huiting Song; software, Jiashu Liu and Jingwei Zhu; supervision, Huiting Song; validation, Huanan Li; writing—original draft, Jiashu Liu; writing—review and editing, Jiashu Liu.

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Correspondence to Huiting Song.

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Xie, X., Liu, J., Jiang, Z. et al. The conversion of the nutrient condition alter the phenol degradation pathway by Rhodococcus biphenylivorans B403: A comparative transcriptomic and proteomic approach. Environ Sci Pollut Res 28, 56152–56163 (2021). https://doi.org/10.1007/s11356-021-14374-8

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