Multi-omic elucidation of aromatic catabolism in adaptively evolved Rhodococcus opacus

Henson, William R.; Campbell, Tayte; DeLorenzo, Drew M.; Gao, Yu; Berla, Bertram; Kim, Soo Ji; Foston, Marcus; Moon, Tae Seok; Dantas, Gautam

doi:10.1016/j.ymben.2018.06.009

Title: Multi-omic elucidation of aromatic catabolism in adaptively evolved Rhodococcus opacus

Journal Article · Fri Jul 27 00:00:00 EDT 2018 · Metabolic Engineering

DOI:https://doi.org/10.1016/j.ymben.2018.06.009· OSTI ID:1544572

Henson, William R. ^[1]; Campbell, Tayte ^[1]; DeLorenzo, Drew M. ^[1];

^[1]; Berla, Bertram ^[1]; Kim, Soo Ji ^[1]; Foston, Marcus ^[1]; Moon, Tae Seok ^[1]; Dantas, Gautam ^[1]

Washington Univ., St. Louis, MO (United States)

Lignin utilization has been identified as a key factor in biorefinery profitability. However, lignin depolymerization generates heterogeneous aromatic mixtures that inhibit microbial growth and conversion of lignocellulose to biochemicals. Rhodococcus opacus is a promising aromatic-catabolizing, oleaginous bacterium, but mechanisms for its aromatic tolerance and utilization remain undercharacterized. To better understand these mechanisms, we adaptively evolved R. opacus for improved utilization of 32 combinations of diverse aromatic compounds. Evolved R. opacus mutants showed up to 1900% growth improvement in the utilization of phenol, guaiacol, 4-hydroxybenzoate, vanillate, and benzoate compared to the wild-type strain. Whole genome sequencing revealed several redox-related genes with mutations shared across multiple adapted mutants. PVHG6, the mutant with the most improved growth on a mixture of multiple aromatic compounds, showed 56% lower superoxide dismutase activity than the wild-type strain, suggesting that redox reactions are important for aromatic tolerance and utilization. Comparative transcriptomics revealed by-product detoxification pathways and five aromatic funneling pathways that were upregulated in response to specific aromatic compounds. Gene knockout experiments confirmed the two degradation routes of the β-ketoadipate pathway for five aromatic compounds. Finally, these results provide an improved understanding of aromatic bioconversion and facilitate development of R. opacus as a biorefinery host.

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Research Organization:: Washington Univ., St. Louis, MO (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Contributing Organization:: Gautam Dantas

Grant/Contract Number:: SC0012705

OSTI ID:: 1544572

Alternate ID(s):: OSTI ID: 1548002

Journal Information:: Metabolic Engineering, Vol. 49, Issue C; ISSN 1096-7176

Publisher:: ElsevierCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 37 works

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09 BIOMASS FUELS
59 BASIC BIOLOGICAL SCIENCES
Rhodococcus opacus
lignocellulose degradation
biofuel
Adaptation
Aromatic tolerance
Funneling pathway
Lignin
Redox metabolism

Title: Multi-omic elucidation of aromatic catabolism in adaptively evolved Rhodococcus opacus

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