Improved CRISPR genome editing using small highly active and specific engineered RNA-guided nucleases

Moritz J Schmidt1, Ashish Gupta1, Christien Bednarski1

  • 1Bayer AG, Leverkusen, Germany.

Nature Communications
|July 10, 2021
PubMed

Insights

Researchers engineered smaller, highly effective CRISPR gene editing tools called synthetic RNA-guided nucleases (sRGNs). These novel Cas9 alternatives show promise for gene therapy, overcoming limitations of current systems for treating diseases.

Area of Science:

  • Molecular Biology
  • Gene Editing Technologies
  • Biotechnology

Background:

  • Streptococcus pyogenes Cas9 (SpyCas9) is a powerful gene editing tool but its large size poses delivery challenges for gene therapy.
  • Existing smaller Cas9 variants often exhibit reduced activity or specificity and recognize different PAM sequences.
  • There is a need for smaller, highly efficient, and specific Cas9 nucleases for therapeutic applications.

Purpose of the Study:

  • To investigate uncharacterized smaller Cas9 proteins as potential alternatives to SpyCas9.
  • To engineer novel synthetic RNA-guided nucleases (sRGNs) with enhanced editing efficiency and specificity.
  • To evaluate the therapeutic potential of sRGNs in vitro and in vivo for gene therapy applications.

Main Methods:

  • Screening of four uncharacterized smaller Cas9 proteins.
  • Protein engineering of identified Cas9 variants to create sRGNs.
  • In vitro and human cell line validation of sRGN editing efficiency and specificity.
  • In vivo delivery studies using mRNA lipid nanoparticles in mice and adeno-associated virus (AAV) vectors in non-human primates (NHPs).

Main Results:

  • Three novel smaller Cas9 enzymes were identified, utilizing a "GG" PAM sequence similar to SpyCas9.
  • Engineered sRGNs demonstrated superior in vitro and in human cell line editing efficiency and specificity compared to SpyCas9.
  • sRGN mRNA lipid nanoparticles showed efficient in vivo editing in mouse liver.
  • sRGNs, but not SpyCas9, were successfully packaged into all-in-one AAV vectors for robust in vivo editing in NHP retina photoreceptors.

Conclusions:

  • Engineered sRGNs represent a significant advancement over existing CRISPR nucleases, offering improved performance and delivery advantages.
  • These novel nucleases overcome key limitations of SpyCas9, paving the way for more effective gene therapies.
  • The successful in vivo application in NHP retina photoreceptors highlights the potential of sRGNs for treating genetic disorders affecting vision.

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