Review

. 2018 Jun;16(6):333-339.

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

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

Rebecca S Shapiro^{1

2

3}, Alejandro Chavez⁴, James J Collins^{5

6

7}

Affiliations

¹ Department of Biological Engineering, Institute for Medical Engineering and Science, Synthetic Biology Center, MIT, Cambridge, MA, USA.
² Broad Institute of MIT and Harvard, Cambridge, MA, USA.
³ Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario, Canada.
⁴ Department of Pathology and Cell Biology, Columbia University College of Physicians and Surgeons, New York, NY, USA.
⁵ Department of Biological Engineering, Institute for Medical Engineering and Science, Synthetic Biology Center, MIT, Cambridge, MA, USA. jimjc@mit.edu.
⁶ Broad Institute of MIT and Harvard, Cambridge, MA, USA. jimjc@mit.edu.
⁷ Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, USA. jimjc@mit.edu.

PMID: 29599458
DOI: 10.1038/s41579-018-0002-7

Review

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

Rebecca S Shapiro et al. Nat Rev Microbiol. 2018 Jun.

. 2018 Jun;16(6):333-339.

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

Authors

Rebecca S Shapiro^{1

2

3}, Alejandro Chavez⁴, James J Collins^{5

6

7}

Affiliations

¹ Department of Biological Engineering, Institute for Medical Engineering and Science, Synthetic Biology Center, MIT, Cambridge, MA, USA.
² Broad Institute of MIT and Harvard, Cambridge, MA, USA.
³ Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario, Canada.
⁴ Department of Pathology and Cell Biology, Columbia University College of Physicians and Surgeons, New York, NY, USA.
⁵ Department of Biological Engineering, Institute for Medical Engineering and Science, Synthetic Biology Center, MIT, Cambridge, MA, USA. jimjc@mit.edu.
⁶ Broad Institute of MIT and Harvard, Cambridge, MA, USA. jimjc@mit.edu.
⁷ Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, USA. jimjc@mit.edu.

PMID: 29599458
DOI: 10.1038/s41579-018-0002-7

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

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