Fine-Tuning Next-Generation Genome Editing Tools

被引:43
作者
Kanchiswamy, Chidananda Nagamangala [1 ]
Maffei, Massimo [2 ]
Malnoy, Mickael [1 ]
Velasco, Riccardo [1 ]
Kim, Jin-Soo [3 ,4 ]
机构
[1] FEM, Genom & Biol Fruit Crop Dept, Res & Innovat Ctr, Via Mach 1, I-38010 San Michele All Adige, TN, Italy
[2] Univ Turin, Innovat Ctr, Dept Life Sci & Syst Biol, Via Quarello 15-A, I-10135 Turin, Italy
[3] Inst for Basic Sci Korea, Ctr Genome Engn, Gwanak Ro 1, Seoul 151747, South Korea
[4] Seoul Natl Univ, Dept Chem, Gwanak Ro 1, Seoul 151747, South Korea
关键词
OFF-TARGET CLEAVAGE; RNA-GUIDED ENDONUCLEASES; ZINC-FINGER NUCLEASES; CRISPR-CAS NUCLEASES; HUMAN-CELLS; WIDE ANALYSIS; DNA CLEAVAGE; DIGENOME-SEQ; SPECIFICITY; GENE;
D O I
10.1016/j.tibtech.2016.03.007
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
The availability of genome sequences of numerous organisms and the revolution brought about by genome editing tools (e.g., ZFNs, TALENs, and CRISPR/Cas9 or RGENs) has provided a breakthrough in introducing targeted genetic changes both to explore emergent phenotypes and to introduce new functionalities. However, the wider application of these tools in biology, agriculture, medicine, and biotechnology is limited by off-target mutation effects. In this review, we compare available methods for detecting, measuring, and analyzing off-target mutations. Furthermore, we particularly focus on CRISPR/Cas9 regarding various methods, tweaks, and software tools available to nullify off-target effects.
引用
收藏
页码:562 / 574
页数:13
相关论文
共 71 条
  • [41] CHOPCHOP: a CRISPR/Cas9 and TALEN web tool for genome editing
    Montague, Tessa G.
    Cruz, Jose M.
    Gagnon, James A.
    Church, George M.
    Valen, Eivind
    [J]. NUCLEIC ACIDS RESEARCH, 2014, 42 (W1) : W401 - W407
  • [42] A Simple Cipher Governs DNA Recognition by TAL Effectors
    Moscou, Matthew J.
    Bogdanove, Adam J.
    [J]. SCIENCE, 2009, 326 (5959) : 1501 - 1501
  • [43] A novel TALE nuclease scaffold enables high genome editing activity in combination with low toxicity
    Mussolino, Claudio
    Morbitzer, Robert
    Luetge, Fabienne
    Dannemann, Nadine
    Lahaye, Thomas
    Cathomen, Toni
    [J]. NUCLEIC ACIDS RESEARCH, 2011, 39 (21) : 9283 - 9293
  • [44] CRISPRdirect: software for designing CRISPR/Cas guide RNA with reduced off-target sites
    Naito, Yuki
    Hino, Kimihiro
    Bono, Hidemasa
    Ui-Tei, Kumiko
    [J]. BIOINFORMATICS, 2015, 31 (07) : 1120 - 1123
  • [45] GT-Scan: identifying unique genomic targets
    O'Brien, Aidan
    Bailey, Timothy L.
    [J]. BIOINFORMATICS, 2014, 30 (18) : 2673 - 2675
  • [46] Targeted inversion and reversion of the blood coagulation factor 8 gene in human iPS cells using TALENs
    Park, Chul-Yong
    Kim, Jungeun
    Kweon, Jiyeon
    Son, Jeong Sang
    Lee, Jae Souk
    Yoo, Jeong-Eun
    Cho, Sung-Rae
    Kim, Jong-Hoon
    Kim, Jin-Soo
    Kim, Dong-Wook
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2014, 111 (25) : 9253 - 9258
  • [47] Cas-Designer: a web-based tool for choice of CRISPR-Cas9 target sites
    Park, Jeongbin
    Bae, Sangsu
    Kim, Jin-Soo
    [J]. BIOINFORMATICS, 2015, 31 (24) : 4014 - 4016
  • [48] High-throughput profiling of off-target DNA cleavage reveals RNA-programmed Cas9 nuclease specificity
    Pattanayak, Vikram
    Lin, Steven
    Guilinger, John P.
    Ma, Enbo
    Doudna, Jennifer A.
    Liu, David R.
    [J]. NATURE BIOTECHNOLOGY, 2013, 31 (09) : 839 - +
  • [49] CRISPR MultiTargeter: A Web Tool to Find Common and Unique CRISPR Single Guide RNA Targets in a Set of Similar Sequences
    Prykhozhij, Sergey V.
    Rajan, Vinothkumar
    Gaston, Daniel
    Berman, Jason N.
    [J]. PLOS ONE, 2015, 10 (03):
  • [50] Double Nicking by RNA-Guided CRISPR Cas9 for Enhanced Genome Editing Specificity
    Ran, F. Ann
    Hsu, Patrick D.
    Lin, Chie-Yu
    Gootenberg, Jonathan S.
    Konermann, Silvana
    Trevino, Alexandro E.
    Scott, David A.
    Inoue, Azusa
    Matoba, Shogo
    Zhang, Yi
    Zhang, Feng
    [J]. CELL, 2013, 154 (06) : 1380 - 1389