The widespread IS200/IS605 transposon family encodes diverse programmable RNA-guided endonucleases

@article{AltaeTran2021TheWI,
  title={The widespread IS200/IS605 transposon family encodes diverse programmable RNA-guided endonucleases},
  author={Han Altae-Tran and Soumya Kannan and F. Esra Demircioglu and Rachel Oshiro and Suchita P. Nety and Luke J. McKay and Mensur Dlaki{\'c} and William P. Inskeep and Kira S. Makarova and Rhiannon K. Macrae and Eugene V. Koonin and Feng Zhang},
  journal={Science},
  year={2021},
  volume={374},
  pages={57 - 65}
}
Description Tracing the origin of CRISPR-Cas CRISPR-Cas systems have transformed genome editing and other biotechnologies; however, the broader origins and diversity of RNA-guided nucleases have largely remained unexplored. Altae-Tran et al. show that three distinct transposon-encoded proteins, IscB, IsrB, and TnpB, are naturally occurring, reprogrammable RNA-guided DNA nucleases (see the Perspective by Rousset and Sorek). In addition to identifying diverse guide-encoding mechanisms, the… 

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References

SHOWING 1-10 OF 66 REFERENCES

Casposons: a new superfamily of self-synthesizing DNA transposons at the origin of prokaryotic CRISPR-Cas immunity

TLDR
The casposons are a novel superfamily of mobile elements, the first family of putative self-synthesizing transposons discovered in prokaryotes and suggest that recruitment of endonucleases from mobile elements as ready-made tools for genome manipulation is a general route of evolution of adaptive immunity.

Transposon-encoded CRISPR–Cas systems direct RNA-guided DNA integration

TLDR
A programmable transposaseintegrates donor DNA at user-defined genomic target sites with high fidelity, revealing a new approach for genetic engineering that obviates the need for DNA double-strand breaks and homologous recombination.

RNA-guided DNA insertion with CRISPR-associated transposases

TLDR
This work expands the understanding of the functional diversity of CRISPR-Cas systems and establishes a paradigm for precision DNA insertion.

A catalogue of biochemically diverse CRISPR-Cas9 orthologs

TLDR
Characterization of a subset of Cas9 orthologs using purified components reveals additional biochemical diversity, including both narrow and broad ranges of temperature dependence, staggered-end DNA target cleavage, and a requirement for long stretches of homology between gRNA and DNA target.

Structures of Cas9 Endonucleases Reveal RNA-Mediated Conformational Activation

TLDR
To compare the architectures and domain organization of diverse Cas9 proteins, the atomic structures of Cas9 from Streptococcus pyogenes and Actinomyces naeslundii and AnaCas9 were determined by x-ray crystallography and three-dimensional reconstructions of apo-SpyCas9, SpyCas9:RNA, and SpyCas 9:RNA:DNA were obtained by negative-stain single-particle electron microscopy.

CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III

CRISPR/Cas systems constitute a widespread class of immunity systems that protect bacteria and archaea against phages and plasmids, and commonly use repeat/spacer-derived short crRNAs to silence

A Programmable Dual-RNA–Guided DNA Endonuclease in Adaptive Bacterial Immunity

TLDR
This study reveals a family of endonucleases that use dual-RNAs for site-specific DNA cleavage and highlights the potential to exploit the system for RNA-programmable genome editing.

Cas9–crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria

TLDR
It is demonstrated that the Cas9–crRNA complex of the Streptococcus thermophilus CRISPR3/Cas system introduces in vitro a double-strand break at a specific site in DNA containing a sequence complementary to crRNA, paving the way for engineering of universal programmable RNA-guided DNA endonucleases.

Evolution of RNA- and DNA-guided antivirus defense systems in prokaryotes and eukaryotes: common ancestry vs convergence

TLDR
The interplay between homology and analogy in the evolution of RNA- and DNA-guided immunity is discussed, and some general evolutionary principles are attempted to formulate for this ancient class of defense systems.
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