Literature DB >> 34515826

Off-target effects of base editors: what we know and how we can reduce it.

Yana S Slesarenko1, Alexander V Lavrov2, Svetlana A Smirnikhina2.   

Abstract

The recently discovered CRISPR-Cas9 modification, base editors (BEs), is considered as one of the most promising tools for correcting disease-causing mutations in humans, since it allows point substitutions to be edited without generating double-stranded DNA breaks, and, therefore, with a significant decrease in non-specific activity. Until recently, this method was considered the safest, but at the same time, it is quite effective. However, recent studies of non-specific activity of BEs revealed that some of them lead to the formation of a huge number of off-targets in both DNA and RNA, occurring due to the nature of the Cas9-fused proteins used. In this review article, we have considered and combined data from numerous studies about the most commonly used and more described in detail APOBEC-based BEs and Target-AID version of CBE, as well as ABE7 and ABE8 with their basic modifications into TadA to improve BEs' specificity. In our opinion, modern advances in molecular genetics make it possible to dramatically reduce the off-target activity of base editors due to introducing mutations into the domains of deaminases or inhibition of Cas9 by anti-CRISPR proteins, which returns BEs to the leading position in genome editing technologies.
© 2021. The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature.

Entities:  

Keywords:  Adenine base editor; Base editing; Cytosine base editor; Off-target; rAPOBEC1

Mesh:

Substances:

Year:  2021        PMID: 34515826     DOI: 10.1007/s00294-021-01211-1

Source DB:  PubMed          Journal:  Curr Genet        ISSN: 0172-8083            Impact factor:   3.886


  36 in total

1.  A novel engineered meganuclease induces homologous recombination in yeast and mammalian cells.

Authors:  Jean-Charles Epinat; Sylvain Arnould; Patrick Chames; Pascal Rochaix; Dominique Desfontaines; Clémence Puzin; Amélie Patin; Alexandre Zanghellini; Frédéric Pâques; Emmanuel Lacroix
Journal:  Nucleic Acids Res       Date:  2003-06-01       Impact factor: 16.971

2.  Two alternative pathways of double-strand break repair that are kinetically separable and independently modulated.

Authors:  J Fishman-Lobell; N Rudin; J E Haber
Journal:  Mol Cell Biol       Date:  1992-03       Impact factor: 4.272

Review 3.  DNA breakage and repair.

Authors:  P A Jeggo
Journal:  Adv Genet       Date:  1998       Impact factor: 1.944

4.  Cytosine, but not adenine, base editors induce genome-wide off-target mutations in rice.

Authors:  Shuai Jin; Yuan Zong; Qiang Gao; Zixu Zhu; Yanpeng Wang; Peng Qin; Chengzhi Liang; Daowen Wang; Jin-Long Qiu; Feng Zhang; Caixia Gao
Journal:  Science       Date:  2019-02-28       Impact factor: 47.728

5.  Targeted genome engineering in human cells with the Cas9 RNA-guided endonuclease.

Authors:  Seung Woo Cho; Sojung Kim; Jong Min Kim; Jin-Soo Kim
Journal:  Nat Biotechnol       Date:  2013-01-29       Impact factor: 54.908

6.  Directed evolution using dCas9-targeted somatic hypermutation in mammalian cells.

Authors:  Gaelen T Hess; Laure Frésard; Kyuho Han; Cameron H Lee; Amy Li; Karlene A Cimprich; Stephen B Montgomery; Michael C Bassik
Journal:  Nat Methods       Date:  2016-10-31       Impact factor: 28.547

7.  A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity.

Authors:  Martin Jinek; Krzysztof Chylinski; Ines Fonfara; Michael Hauer; Jennifer A Doudna; Emmanuelle Charpentier
Journal:  Science       Date:  2012-06-28       Impact factor: 47.728

8.  Directed evolution of adenine base editors with increased activity and therapeutic application.

Authors:  Nicole M Gaudelli; Dieter K Lam; Holly A Rees; Noris M Solá-Esteves; Luis A Barrera; David A Born; Aaron Edwards; Jason M Gehrke; Seung-Joo Lee; Alexander J Liquori; Ryan Murray; Michael S Packer; Conrad Rinaldi; Ian M Slaymaker; Jonathan Yen; Lauren E Young; Giuseppe Ciaramella
Journal:  Nat Biotechnol       Date:  2020-04-13       Impact factor: 54.908

9.  An APOBEC3A-Cas9 base editor with minimized bystander and off-target activities.

Authors:  Jason M Gehrke; Oliver Cervantes; M Kendell Clement; Yuxuan Wu; Jing Zeng; Daniel E Bauer; Luca Pinello; J Keith Joung
Journal:  Nat Biotechnol       Date:  2018-07-30       Impact factor: 54.908

Review 10.  CRISPR base editors: genome editing without double-stranded breaks.

Authors:  Ayman Eid; Sahar Alshareef; Magdy M Mahfouz
Journal:  Biochem J       Date:  2018-06-11       Impact factor: 3.857

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