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Rediverting Electron Flux with an Engineered CRISPR-ddAsCpf1 System to Enhance the Pollutant Degradation Capacity of Shewanella oneidensis

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    Rediverting Electron Flux with an Engineered CRISPR-ddAsCpf1 System to Enhance the Pollutant Degradation Capacity of Shewanella oneidensis
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    • Jie Li
      Jie Li
      CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
      University of Science and Technology of China-City University of Hong Kong Joint Advanced Research Center, Suzhou 215123, China
      State Key Laboratory in Marine Pollution, Department of Chemistry, City University of Hong Kong, Kowloon 999077, Hong Kong SAR, China
      More by Jie Li
    • Qiang Tang*
      Qiang Tang
      CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
      *E-mail: [email protected]. Fax: +86 551 63607592 (Q.T.).
      More by Qiang Tang
    • Yang Li
      Yang Li
      CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
      More by Yang Li
    • Yang-Yang Fan
      Yang-Yang Fan
      CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
      More by Yang-Yang Fan
    • Feng-He Li
      Feng-He Li
      CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
      More by Feng-He Li
    • Jing-Hang Wu
      Jing-Hang Wu
      CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
      More by Jing-Hang Wu
      Orcidhttp://orcid.org/0000-0002-8087-8440
    • Di Min
      Di Min
      CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
      More by Di Min
    • Wen-Wei Li
      Wen-Wei Li
      CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
      University of Science and Technology of China-City University of Hong Kong Joint Advanced Research Center, Suzhou 215123, China
      More by Wen-Wei Li
      Orcidhttp://orcid.org/0000-0001-9280-0045
    • Paul K. S. Lam
      Paul K. S. Lam
      University of Science and Technology of China-City University of Hong Kong Joint Advanced Research Center, Suzhou 215123, China
      State Key Laboratory in Marine Pollution, Department of Chemistry, City University of Hong Kong, Kowloon 999077, Hong Kong SAR, China
      More by Paul K. S. Lam
      Orcidhttp://orcid.org/0000-0002-2134-3710
    • Han-Qing Yu*
      Han-Qing Yu
      CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
      University of Science and Technology of China-City University of Hong Kong Joint Advanced Research Center, Suzhou 215123, China
      *E-mail: [email protected]. Fax: +86 551 63601592 (H.Q.Y.).
      More by Han-Qing Yu
      Orcidhttp://orcid.org/0000-0001-5247-6244
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    Environmental Science & Technology

    Cite this: Environ. Sci. Technol. 2020, 54, 6, 3599–3608
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    https://doi.org/10.1021/acs.est.9b06378
    Published February 16, 2020
    Copyright © 2020 American Chemical Society
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    Abstract

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    Pursuing efficient approaches to promote the extracellular electron transfer (EET) of extracellular respiratory bacteria is essential to their application in environmental remediation and waste treatment. Here, we report a new strategy of tuning electron flux by clustered regularly interspaced short palindromic repeat (CRISPR)-ddAsCpf1-based rediverting (namely STAR) to enhance the EET capacity of Shewanella oneidensis MR-1, a model extracellular respiratory bacterium widely present in the environment. The developed CRISPR-ddAsCpf1 system enabled approximately 100% gene repression with the green fluorescent protein (GFP) as a reporter. Using a WO3 probe, 10 representative genes encoding for putative competitive electron transfer proteins were screened, among which 7 genes were identified as valid targets for EET enhancement. Repressing the valid genes not only increased the transcription level of the l-lactate metabolism genes but also affected the genes involved in direct and indirect EET. Increased riboflavin production was also observed. The feasibility of this strategy to enhance the bioreduction of methyl orange, an organic pollutant, and chromium, a typical heavy metal, was demonstrated. This work implies a great potential of the STAR strategy with the CIRPSR-ddAsCpf1 system for enhancing bacterial EET to favor more efficient environmental remediation applications.

    Copyright © 2020 American Chemical Society

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    The Supporting Information is available free of charge at https://pubs.acs.org/doi/10.1021/acs.est.9b06378.

    • Detailed descriptions about strains, plasmids (Table S1), and primers (Table S2) used in this work; characterization of the IPTG inducible promoter in response to various IPTG inducer concentrations (0–10 mM) in S. oneidensis MR-1 (Figure S1); evaluation of crRNA-T2 targeting lacZ ORF downstream of the GFP gene in the GFP-LacZ tandem cassette (Figure S2); SEM and EDS results of the precipitate on the cell surface of S. oneidensis carrying pECR-dmsE before and after exposure to Cr(VI) (Figure S3); TEM and EDS results of the formed precipitate on the cell surface of S. oneidensis carrying pECR-dmsE after loading with Cr(VI) (Figure S4); evaluation of the engineered CRISPR-ddAsCpf1 system for gene interference in E. coli. (Figure S5) (PDF)

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    Cited By

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    This article is cited by 45 publications.

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    Cite this: Environ. Sci. Technol. 2020, 54, 6, 3599–3608
    Click to copy citationCitation copied!
    https://doi.org/10.1021/acs.est.9b06378
    Published February 16, 2020
    Copyright © 2020 American Chemical Society
    Request reuse permissions

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