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CRISPR-based genomic tools for the manipulation of genetically intractable microorganisms

Nature Reviews Microbiologyvolume 16pages333339 (2018) | Download Citation

Abstract

Genetic manipulation of microorganisms has been crucial in understanding their biology, yet for many microbial species, robust tools for comprehensive genetic analysis were lacking until the advent of CRISPR–Cas-based gene editing techniques. In this Progress article, we discuss advances in CRISPR-based techniques for the genetic analysis of genetically intractable microorganisms, with an emphasis on mycobacteria, fungi and parasites. We discuss how CRISPR-based analyses in these organisms have enabled the discovery of novel gene functions, the investigation of genetic interaction networks and the identification of virulence factors.

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Acknowledgements

Work in the authors’ laboratory was supported by the Defense Threat Reduction Agency grant HDTRA1-15-1-0051, the Paul G. Allen Frontiers Group, the Wyss Institute for Biologically Inspired Engineering and the Broad Institute of MIT and Harvard. A.C. acknowledges support from the Burroughs Wellcome Fund Career Award for Medical Scientists.

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Affiliations

  1. Department of Biological Engineering, Institute for Medical Engineering and Science, Synthetic Biology Center, MIT, Cambridge, MA, USA

    • Rebecca S. Shapiro
    •  & James J. Collins
  2. Broad Institute of MIT and Harvard, Cambridge, MA, USA

    • Rebecca S. Shapiro
    •  & James J. Collins
  3. Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario, Canada

    • Rebecca S. Shapiro
  4. Department of Pathology and Cell Biology, Columbia University College of Physicians and Surgeons, New York, NY, USA

    • Alejandro Chavez
  5. Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, USA

    • James J. Collins

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Contributions

R.S.S. researched data for the article and wrote the article. J.J.C., A.C. and R.S.S. made substantial contributions to discussions of the content and reviewed and edited the manuscript before submission.

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The authors declare no competing interests.

Corresponding author

Correspondence to James J. Collins.

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https://doi.org/10.1038/s41579-018-0002-7

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