Comparison of efficiency and specificity of CRISPR-associated (Cas) nucleases in plants: An expanded toolkit for precision genome engineering.

PloS One
Oleg RaitskinNicola J Patron

Abstract

Molecular tools adapted from bacterial CRISPR (Clustered Regulatory Interspaced Short Palindromic Repeats) systems for adaptive immunity have become widely used for plant genome engineering, both to investigate gene functions and to engineer desirable traits. A number of different Cas (CRISPR-associated) nucleases are now used but, as most studies performed to date have engineered different targets using a variety of plant species and molecular tools, it has been difficult to draw conclusions about the comparative performance of different nucleases. Due to the time and effort required to regenerate engineered plants, efficiency is critical. In addition, there have been several reports of mutations at sequences with less than perfect identity to the target. While in some plant species it is possible to remove these so-called 'off-targets' by backcrossing to a parental line, the specificity of genome engineering tools is important when targeting specific members of closely-related gene families, especially when recent paralogues are co-located in the genome and unlikely to segregate. Specificity is also important for species that take years to reach sexual maturity or that are clonally propagated. Here, we directly compare the ef...Continue Reading

References

Jun 7, 1994·Proceedings of the National Academy of Sciences of the United States of America·R L PhillipsP Olhoft
Mar 24, 2007·Science·Rodolphe BarrangouPhilippe Horvath
Nov 6, 2008·PloS One·Carola EnglerSylvestre Marillonnet
Jan 30, 2010·Bioinformatics·Aaron R Quinlan, Ira M Hall
Jan 11, 2011·Bioinformatics·Guillaume Marçais, Carl Kingsford
Dec 1, 2011·Bioengineered Bugs·Stefan WernerSylvestre Marillonnet
Aug 22, 2012·Bioinformatics·Johannes Köster, Sven Rahmann
Jan 5, 2013·Science·Le CongFeng Zhang
Jan 5, 2013·Science·Prashant MaliGeorge M Church
Jan 21, 2014·The Plant Cell·Nicholas J BaltesDaniel F Voytas
Jan 31, 2014·Nature·Samuel H SternbergJennifer A Doudna
Apr 9, 2014·PloS One·Hongge Jia, Nian Wang
Jun 17, 2014·ACS Synthetic Biology·Carola EnglerSylvestre Marillonnet
Sep 4, 2014·Nature Biotechnology·John G DoenchDavid E Root
Nov 30, 2014·BMC Plant Biology·Hui-Li XingQi-Jun Chen
Apr 2, 2015·Nature·F Ann RanFeng Zhang
Jun 13, 2015·Genome Research·Han XuX Shirley Liu
Jun 13, 2015·Genome Research·Ming-Jung LiuShin-Han Shiu
Jun 23, 2015·Nature·Benjamin P KleinstiverJ Keith Joung
Jul 15, 2015·The New Phytologist·Nicola J PatronJim Haseloff
Aug 22, 2015·Plant Physiology·Zhongsen LiA Mark Cigan
Nov 3, 2015·Nature Biotechnology·Benjamin P KleinstiverJ Keith Joung
Nov 7, 2015·Genome Biology·Tomáš ČermákDaniel F Voytas
Nov 19, 2015·The Plant Journal : for Cell and Molecular Biology·Jeannette SteinertHolger Puchta
Dec 3, 2015·Science·Ian M SlaymakerFeng Zhang
Dec 15, 2015·Annual Review of Plant Biology·Zhubing HuLieven De Veylder
Jan 19, 2016·Nature Biotechnology·John G DoenchDavid E Root
Jan 30, 2016·Plant Methods·Simon Schiml, Holger Puchta
Mar 18, 2016·ELife·Max A HorlbeckJonathan S Weissman
May 27, 2016·Scientific Reports·Hidetaka KayaSeiichi Toki
Jun 1, 2016·Plant, Cell & Environment·Oskar FranklinTorgny Näsholm
Jul 13, 2016·Nature Biotechnology·Luca PinelloGuo-Cheng Yuan
Aug 12, 2016·Plant Biotechnology Journal·Si Nian CharBing Yang
Nov 23, 2016·Plant Biotechnology Journal·Rongfang XuJianbo Yang
Dec 13, 2016·The Plant Journal : for Cell and Molecular Biology·Javier Gil-HumanesDaniel F Voytas

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Citations

Jan 11, 2020·The Plant Journal : for Cell and Molecular Biology·Paul D FraserAlisdair R Fernie
Apr 4, 2020·The Journal of Biological Chemistry·Vladimir MeklerKonstantin Severinov
Aug 1, 2020·Journal of Experimental Botany·Panupon KhumsupanAlistair J McCormick
Aug 29, 2020·Nucleic Acids Research·Yao-Min CaiNicola J Patron
Nov 5, 2019·Transgenic Research·Rishikesh GhogareAmit Dhingra
Apr 25, 2020·BMC Plant Biology·Florian HahnVladimir Nekrasov
Jan 30, 2021·Plant Biotechnology Journal·Teng-Kuei HuangHolger Puchta
Dec 22, 2020·Synthetic Biology·Grace A MeakerThomas E Gorochowski
Mar 2, 2021·Transgenic Research·Teng-Kuei Huang, Holger Puchta
Mar 12, 2021·Methods : a Companion to Methods in Enzymology·Yanhui YangHetian Lei
Oct 30, 2021·Frontiers in Genome Editing·Sophie DonovanAlistair J McCormick

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Datasets Mentioned

BETA
E-GEOD-38612
PRJEB3044

Methods Mentioned

BETA
transgenic
PCR
transfection
ICE
targeted
Illumina sequencing
FACS
targeted mutations

Software Mentioned

bbduk
Plant MoClo Toolkit
sgRNA
ES
Synthego
Plant Modular Cloning ( MoClo )
Bedtools intersect
CRISPR Editing ( ICE )
Inference of
Jellyfish

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