Off-target effects in CRISPR/Cas9 gene editing

被引:214
作者
Guo, Congting [1 ,2 ]
Ma, Xiaoteng [3 ]
Gao, Fei [3 ]
Guo, Yuxuan [1 ,2 ,4 ,5 ]
机构
[1] Peking Univ, Sch Basic Med Sci, Hlth Sci Ctr, Beijing, Peoples R China
[2] Peking Univ, Inst Cardiovasc Sci, Beijing, Peoples R China
[3] Capital Med Univ, Beijing Anzhen Hosp, Dept Cardiol, Beijing, Peoples R China
[4] Minist Educ Key Lab Mol Cardiovasc Sci, Beijing, Peoples R China
[5] Beijing Key Lab Cardiovasc Receptors Res, Beijing, Peoples R China
基金
国家重点研发计划; 中国国家自然科学基金;
关键词
off-target effects; gene editing; CRISPR/Cas9; gene therapy; Cas9/sgRNA complex; GENOME-WIDE ANALYSIS; DOUBLE-STRANDED BREAKS; CRISPR-CAS9; NUCLEASES; UNBIASED DETECTION; HUMAN-CELLS; CAS9; DNA; SEQ; DELIVERY; BASE;
D O I
10.3389/fbioe.2023.1143157
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Gene editing stands for the methods to precisely make changes to a specific nucleic acid sequence. With the recent development of the clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9 system, gene editing has become efficient, convenient and programmable, leading to promising translational studies and clinical trials for both genetic and non-genetic diseases. A major concern in the applications of the CRISPR/Cas9 system is about its off-target effects, namely the deposition of unexpected, unwanted, or even adverse alterations to the genome. To date, many methods have been developed to nominate or detect the off-target sites of CRISPR/Cas9, which laid the basis for the successful upgrades of CRISPR/Cas9 derivatives with enhanced precision. In this review, we summarize these technological advancements and discuss about the current challenges in the management of off-target effects for future gene therapy.
引用
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页数:11
相关论文
共 105 条
[1]   Cas-OFFinder: a fast and versatile algorithm that searches for potential off-target sites of Cas9 RNA-guided endonucleases [J].
Bae, Sangsu ;
Park, Jeongbin ;
Kim, Jin-Soo .
BIOINFORMATICS, 2014, 30 (10) :1473-1475
[2]  
Ballarino R, 2021, METHODS MOL BIOL, V2162, P261, DOI 10.1007/978-1-0716-0687-2_15
[3]   Tools for experimental and computational analyses of off-target editing by programmable nucleases [J].
Bao, X. Robert ;
Pan, Yidan ;
Lee, Ciaran M. ;
Davis, Timothy H. ;
Bao, Gang .
NATURE PROTOCOLS, 2021, 16 (01) :10-26
[4]  
Cameron P, 2017, NAT METHODS, V14, P600, DOI [10.1038/NMETH.4284, 10.1038/nmeth.4284]
[5]   A highly specific SpCas9 variant is identified by in vivo screening in yeast [J].
Casini, Antonio ;
Olivieri, Michele ;
Petris, Gianluca ;
Montagna, Claudia ;
Reginato, Giordano ;
Maule, Giulia ;
Lorenzin, Francesca ;
Prandi, Davide ;
Romanel, Alessandro ;
Demichelis, Francesca ;
Inga, Alberto ;
Cereseto, Anna .
NATURE BIOTECHNOLOGY, 2018, 36 (03) :265-+
[6]   Protospacer Adjacent Motif (PAM)-Distal Sequences Engage CRISPR Cas9 DNA Target Cleavage [J].
Cencic, Regina ;
Miura, Hisashi ;
Malina, Abba ;
Robert, Francis ;
Ethier, Sylvain ;
Schmeing, T. Martin ;
Dostie, Josee ;
Pelletier, Jerry .
PLOS ONE, 2014, 9 (10)
[7]   Enhanced proofreading governs CRISPR-Cas9 targeting accuracy [J].
Chen, Janice S. ;
Dagdas, Yavuz S. ;
Kleinstiver, Benjamin P. ;
Welch, Moira M. ;
Sousa, Alexander A. ;
Harrington, Lucas B. . ;
Sternberg, Samuel H. ;
Joung, J. Keith ;
Yildiz, Ahmet ;
Doudna, Jennifer A. .
NATURE, 2017, 550 (7676) :407-+
[8]   Analysis of off-target effects of CRISPR/Cas-derived RNA-guided endonucleases and nickases [J].
Cho, Seung Woo ;
Kim, Sojung ;
Kim, Yongsub ;
Kweon, Jiyeon ;
Kim, Heon Seok ;
Bae, Sangsu ;
Kim, Jin-Soo .
GENOME RESEARCH, 2014, 24 (01) :132-141
[9]   Targeted genome engineering in human cells with the Cas9 RNA-guided endonuclease [J].
Cho, Seung Woo ;
Kim, Sojung ;
Kim, Jong Min ;
Kim, Jin-Soo .
NATURE BIOTECHNOLOGY, 2013, 31 (03) :230-232
[10]   DeepCRISPR: optimized CRISPR guide RNA design by deep learning [J].
Chuai, Guohui ;
Ma, Hanhui ;
Yan, Jifang ;
Chen, Ming ;
Hong, Nanfang ;
Xue, Dongyu ;
Zhou, Chi ;
Zhu, Chenyu ;
Chen, Ke ;
Duan, Bin ;
Gu, Feng ;
Qu, Sheng ;
Huang, Deshuang ;
Wei, Jia ;
Liu, Qi .
GENOME BIOLOGY, 2018, 19