Strategies to Increase On-Target and Reduce Off-Target Effects of the CRISPR/Cas9 System in Plants

CRISPR-DT: designing gRNAs for the CRISPR-Cpf1 system with improved target efficiency and specificity

(2019) Houxiang Zhu et al.   BIOINFORMATICS

Transgene-Free Genome Editing in Tomato and Potato Plants Using Agrobacterium-Mediated Delivery of a CRISPR/Cas9 Cytidine Base Editor

(2019) Florian Veillet et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Developing Heritable Mutations in Arabidopsis thaliana Using a Modified CRISPR/Cas9 Toolkit Comprising PAM-Altered Cas9 Variants and gRNAs

(2019) Akihiro Yamamoto et al.   PLANT AND CELL PHYSIOLOGY

Genome editing and plant transformation of solanaceous food crops

(2018) Joyce Van Eck   CURRENT OPINION IN BIOTECHNOLOGY

Plant Genome Editing Using FnCpf1 and LbCpf1 Nucleases at Redefined and Altered PAM Sites

(2018) Zhaohui Zhong et al.   Molecular Plant

Partial DNA-guided Cas9 enables genome editing with reduced off-target activity

(2018) Hao Yin et al.   Nature Chemical Biology

Application of protoplast technology to CRISPR/Cas9 mutagenesis: from single-cell mutation detection to mutant plant regeneration

(2018) Choun-Sea Lin et al.   PLANT BIOTECHNOLOGY JOURNAL

Activities and specificities of CRISPR-Cas9 and Cas12a nucleases for targeted mutagenesis in maize

(2018) Keunsub Lee et al.   PLANT BIOTECHNOLOGY JOURNAL

Efficient in planta gene targeting in Arabidopsis using egg cell-specific expression of the Cas9 nuclease of Staphylococcus aureus

(2018) Felix Wolter et al.   PLANT JOURNAL

Efficient in planta gene targeting in tomato using geminiviral replicons and the CRISPR/Cas9 system

(2018) Tal Dahan-Meir et al.   PLANT JOURNAL

Potential high-frequency off-target mutagenesis induced by CRISPR/Cas9 in Arabidopsis and its prevention

(2018) Qiang Zhang et al.   PLANT MOLECULAR BIOLOGY

Application and development of genome editing technologies to the Solanaceae plants

(2018) Tsuyoshi Yamamoto et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

Gene editing by CRISPR/Cas9 in the obligatory outcrossing Medicago sativa

(2018) Ruimin Gao et al.   PLANTA

Transient Expression of CRISPR/Cas9 Machinery Targeting TcNPR3 Enhances Defense Response in Theobroma cacao

(2018) Andrew S. Fister et al.   Frontiers in Plant Science

CRISPR/Cas9-Mediated Multiplex Genome Editing of the BnWRKY11 and BnWRKY70 Genes in Brassica napus L.

(2018) Qinfu Sun et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Efficient generation of stable, heritable gene edits in wheat using CRISPR/Cas9

(2018) Rhian M Howells et al.   BMC PLANT BIOLOGY

Aptazyme-mediated direct modulation of post-transcriptional sgRNA level for conditional genome editing and gene expression

(2018) Hao Chen et al.   JOURNAL OF BIOTECHNOLOGY

CRISPR-PLANT v2: an online resource for highly specific guide RNA spacers based on improved off-target analysis

(2018) Bastian Minkenberg et al.   PLANT BIOTECHNOLOGY JOURNAL

CRISPR/Cas precision: do we need to worry about off-targeting in plants?

(2018) Florian Hahn et al.   PLANT CELL REPORTS

Efficient CRISPR/Cas9-based genome editing and its application to conditional genetic analysis in Marchantia polymorpha

(2018) Shigeo S. Sugano et al.   PLoS One

Enhancement of tomato resistance to Tuta absoluta using a new efficient mesoporous silica nanoparticle-mediated plant transient gene expression approach

(2018) Zahra Hajiahmadi et al.   SCIENTIA HORTICULTURAE

Development and Validation of an Effective CRISPR/Cas9 Vector for Efficiently Isolating Positive Transformants and Transgene-Free Mutants in a Wide Range of Plant Species

(2018) Ting Tang et al.   Frontiers in Plant Science

DNA-Free Genome Editing of Brassica oleracea and B. rapa Protoplasts Using CRISPR-Cas9 Ribonucleoprotein Complexes

(2018) Jana Murovec et al.   Frontiers in Plant Science

Temperature effect on CRISPR-Cas9 mediated genome editing

(2017) Guanghai Xiang et al.   Journal of Genetics and Genomics

Precise Editing of a Target Base in the Rice Genome Using a Modified CRISPR/Cas9 System

(2017) Yuming Lu et al.   Molecular Plant

Generation of Targeted Point Mutations in Rice by a Modified CRISPR/Cas9 System

(2017) Jingying Li et al.   Molecular Plant

Precise base editing in rice, wheat and maize with a Cas9-cytidine deaminase fusion

(2017) Yuan Zong et al.   NATURE BIOTECHNOLOGY

In Planta Processing of the SpCas9–gRNA Complex

(2017) Masafumi Mikami et al.   PLANT AND CELL PHYSIOLOGY

CRISPR/Cas9-mediated efficient targeted mutagenesis in grape in the first generation

(2017) Xianhang Wang et al.   PLANT BIOTECHNOLOGY JOURNAL

Engineering canker-resistant plants through CRISPR/Cas9-targeted editing of the susceptibility gene CsLOB1 promoter in citrus

(2017) Aihong Peng et al.   PLANT BIOTECHNOLOGY JOURNAL

Rapid and efficient CRISPR/Cas9 gene editing in Citrus using the YAO promoter

(2017) Fei Zhang et al.   PLANT CELL REPORTS

Increased efficiency of targeted mutagenesis by CRISPR/Cas9 in plants using heat stress

(2017) Chantal LeBlanc et al.   PLANT JOURNAL

CRISPR-Cas9 Targeted Mutagenesis Leads to Simultaneous Modification of Different Homoeologous Gene Copies in Polyploid Oilseed Rape ( Brassica napus )

(2017) Janina Braatz et al.   PLANT PHYSIOLOGY

CRISPR-Cpf1 mediates efficient homology-directed repair and temperature-controlled genome editing

(2017) Miguel A. Moreno-Mateos et al.   Nature Communications

Efficient DNA-free genome editing of bread wheat using CRISPR/Cas9 ribonucleoprotein complexes

(2017) Zhen Liang et al.   Nature Communications

Plant genome editing with TALEN and CRISPR

(2017) Aimee Malzahn et al.   Cell and Bioscience

Application of CRISPR/Cas9 in plant biology

(2017) Xuan Liu et al.   Acta Pharmaceutica Sinica B

CRISPR/Cas9-mediated targeted mutagenesis in grape

(2017) Ikuko Nakajima et al.   PLoS One

Rapid breeding of parthenocarpic tomato plants using CRISPR/Cas9

(2017) Risa Ueta et al.   Scientific Reports

Precise insertion and guided editing of higher plant genomes using Cpf1 CRISPR nucleases

(2017) Matthew B. Begemann et al.   Scientific Reports

CRISPR/Cas9-mediated genome editing efficiently creates specific mutations at multiple loci using one sgRNA in Brassica napus

(2017) Hong Yang et al.   Scientific Reports

Efficiency and Inheritance of Targeted Mutagenesis in Maize Using CRISPR-Cas9

(2016) Jinjie Zhu et al.   Journal of Genetics and Genomics

CRISPR/Cas9 activity in the rice OsBEIIb gene does not induce off-target effects in the closely related paralog OsBEIIa

(2016) Can Baysal et al.   MOLECULAR BREEDING

Structural Plasticity of PAM Recognition by Engineered Variants of the RNA-Guided Endonuclease Cas9

(2016) Carolin Anders et al.   MOLECULAR CELL

Engineering Herbicide-Resistant Rice Plants through CRISPR/Cas9-Mediated Homologous Recombination of Acetolactate Synthase

(2016) Yongwei Sun et al.   Molecular Plant

The CRISPR-associated DNA-cleaving enzyme Cpf1 also processes precursor CRISPR RNA

(2016) Ines Fonfara et al.   NATURE

Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage

(2016) Alexis C. Komor et al.   NATURE

Multiplex gene editing by CRISPR–Cpf1 using a single crRNA array

(2016) Bernd Zetsche et al.   NATURE BIOTECHNOLOGY

Precision Targeted Mutagenesis via Cas9 Paired Nickases in Rice

(2016) Masafumi Mikami et al.   PLANT AND CELL PHYSIOLOGY

Efficient targeted multiallelic mutagenesis in tetraploid potato (Solanum tuberosum) by transient CRISPR-Cas9 expression in protoplasts

(2016) Mariette Andersson et al.   PLANT CELL REPORTS

Targeted mutagenesis by CRISPR/Cas9 system in the model legume Medicago truncatula

(2016) Yingying Meng et al.   PLANT CELL REPORTS

Site-directed mutagenesis in Petunia × hybrida protoplast system using direct delivery of purified recombinant Cas9 ribonucleoproteins

(2016) Saminathan Subburaj et al.   PLANT CELL REPORTS

An Effective Strategy for Reliably Isolating Heritable and Cas9 -Free Arabidopsis Mutants Generated by CRISPR/Cas9-Mediated Genome Editing

(2016) Xiuhua Gao et al.   PLANT PHYSIOLOGY

Genome editing in maize directed by CRISPR–Cas9 ribonucleoprotein complexes

(2016) Sergei Svitashev et al.   Nature Communications

Achieving Plant CRISPR Targeting that Limits Off-Target Effects

(2016) Jeffrey D. Wolt et al.   Plant Genome

Ligand-dependent ribozymes

(2016) Michele Felletti et al.   Wiley Interdisciplinary Reviews-RNA

Reassessment of the Four Yield-related Genes Gn1a, DEP1, GS3, and IPA1 in Rice Using a CRISPR/Cas9 System

(2016) Meiru Li et al.   Frontiers in Plant Science

DNA-Free Genetically Edited Grapevine and Apple Protoplast Using CRISPR/Cas9 Ribonucleoproteins

(2016) Mickael Malnoy et al.   Frontiers in Plant Science

Enhanced Rice Blast Resistance by CRISPR/Cas9-Targeted Mutagenesis of the ERF Transcription Factor Gene OsERF922

(2016) Fujun Wang et al.   PLoS One

Genome-Wide Assessment of Efficiency and Specificity in CRISPR/Cas9 Mediated Multiple Site Targeting in Arabidopsis

(2016) Brenda A. Peterson et al.   PLoS One

An alternative strategy for targeted gene replacement in plants using a dual-sgRNA/Cas9 design

(2016) Yongping Zhao et al.   Scientific Reports

CRISPR/Cas9-mediated efficient and heritable targeted mutagenesis in tomato plants in the first and later generations

(2016) Changtian Pan et al.   Scientific Reports

CRISPR/Cas9-mediated efficient targeted mutagenesis in Chardonnay (Vitis vinifera L.)

(2016) Chong Ren et al.   Scientific Reports

Efficient Genome Editing in Apple Using a CRISPR/Cas9 system

(2016) Chikako Nishitani et al.   Scientific Reports

The CRISPR/Cas9 system for plant genome editing and beyond

(2015) Luisa Bortesi et al.   BIOTECHNOLOGY ADVANCES

Targeted genome modifications in soybean with CRISPR/Cas9

(2015) Thomas B Jacobs et al.   BMC BIOTECHNOLOGY

Dimeric CRISPR RNA-Guided FokI-dCas9 Nucleases Directed by Truncated gRNAs for Highly Specific Genome Editing

(2015) Nicolas Wyvekens et al.   HUMAN GENE THERAPY

Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex

(2015) Silvana Konermann et al.   NATURE

DNA-free genome editing in plants with preassembled CRISPR-Cas9 ribonucleoproteins

(2015) Je Wook Woo et al.   NATURE BIOTECHNOLOGY

Exploiting SNPs for biallelic CRISPR mutations in the outcrossing woody perennialPopulusreveals 4-coumarate:CoA ligase specificity and redundancy

(2015) Xiaohong Zhou et al.   NEW PHYTOLOGIST

Cas9-chromatin binding information enables more accurate CRISPR off-target prediction

(2015) Ritambhara Singh et al.   NUCLEIC ACIDS RESEARCH

Highly efficient heritable plant genome engineering using Cas9 orthologues fromStreptococcus thermophilusandStaphylococcus aureus

(2015) Jeannette Steinert et al.   PLANT JOURNAL

Comparison of CRISPR/Cas9 expression constructs for efficient targeted mutagenesis in rice

(2015) Masafumi Mikami et al.   PLANT MOLECULAR BIOLOGY

Boosting CRISPR/Cas9 multiplex editing capability with the endogenous tRNA-processing system

(2015) Kabin Xie et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative Effects of ZnO Nanoparticles, ZnO Bulk Particles, and Zn2+ on Brassica napus After Long-Term Exposure: Changes in Growth, Biochemical Compounds, Antioxidant Enzyme Activities, and Zn Bioaccumulation

(2015) Seyed Mousa Mousavi Kouhi et al.   WATER AIR AND SOIL POLLUTION

Targeted mutagenesis in soybean using the CRISPR-Cas9 system

(2015) Xianjun Sun et al.   Scientific Reports

Egg cell-specific promoter-controlled CRISPR/Cas9 efficiently generates homozygous mutants for multiple target genes in Arabidopsis in a single generation

(2015) Zhi-Ping Wang et al.   GENOME BIOLOGY

Germline-Transmitted Genome Editing in Arabidopsis thaliana Using TAL-Effector-Nucleases

(2015) Joachim Forner et al.   PLoS One

Efficient CRISPR/Cas9-mediated Targeted Mutagenesis in Populus in the First Generation

(2015) Di Fan et al.   Scientific Reports

Cationic lipid-mediated delivery of proteins enables efficient protein-based genome editing in vitro and in vivo

(2014) John A Zuris et al.   NATURE BIOTECHNOLOGY

Improving CRISPR-Cas nuclease specificity using truncated guide RNAs

(2014) Yanfang Fu et al.   NATURE BIOTECHNOLOGY

Dimeric CRISPR RNA-guided FokI nucleases for highly specific genome editing

(2014) Shengdar Q Tsai et al.   NATURE BIOTECHNOLOGY

CRISPR-Cas systems for editing, regulating and targeting genomes

(2014) Jeffry D Sander et al.   NATURE BIOTECHNOLOGY

GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases

(2014) Shengdar Q Tsai et al.   NATURE BIOTECHNOLOGY

E-CRISP: fast CRISPR target site identification

(2014) Florian Heigwer et al.   NATURE METHODS

CRISPR/Cas9 systems have off-target activity with insertions or deletions between target DNA and guide RNA sequences

(2014) Y. Lin et al.   NUCLEIC ACIDS RESEARCH

Large chromosomal deletions and heritable small genetic changes induced by CRISPR/Cas9 in rice

(2014) Huanbin Zhou et al.   NUCLEIC ACIDS RESEARCH

Multigene Knockout Utilizing Off-Target Mutations of the CRISPR/Cas9 System in Rice

(2014) Masaki Endo et al.   PLANT AND CELL PHYSIOLOGY

RNA-guided transcriptional regulationin plantavia synthetic dCas9-based transcription factors

(2014) Agnieszka Piatek et al.   PLANT BIOTECHNOLOGY JOURNAL

The CRISPR/Cas9 system produces specific and homozygous targeted gene editing in rice in one generation

(2014) Hui Zhang et al.   PLANT BIOTECHNOLOGY JOURNAL

Efficient Gene Editing in Tomato in the First Generation Using the Clustered Regularly Interspaced Short Palindromic Repeats/CRISPR-Associated9 System

(2014) C. Brooks et al.   PLANT PHYSIOLOGY

Site-directed mutagenesis in Arabidopsis thaliana using dividing tissue-targeted RGEN of the CRISPR/Cas system to generate heritable null alleles

(2014) Youbong Hyun et al.   PLANTA

Targeted Genome Editing of Sweet Orange Using Cas9/sgRNA

(2014) Hongge Jia et al.   PLoS One

Multigeneration analysis reveals the inheritance, specificity, and patterns of CRISPR/Cas-induced gene modifications in Arabidopsis

(2014) Z. Feng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gene targeting using the Agrobacterium tumefaciens-mediated CRISPR-Cas system in rice

(2014) Rongfang Xu et al.   Rice

Enhanced Specificity and Efficiency of the CRISPR/Cas9 System with Optimized sgRNA Parameters in Drosophila

(2014) Xingjie Ren et al.   Cell Reports

Targeted mutagenesis in rice using CRISPR-Cas system

(2013) Jin Miao et al.   CELL RESEARCH

Analysis of off-target effects of CRISPR/Cas-derived RNA-guided endonucleases and nickases

(2013) S. W. Cho et al.   GENOME RESEARCH

Targeted Mutagenesis in Zea mays Using TALENs and the CRISPR/Cas System

(2013) Zhen Liang et al.   Journal of Genetics and Genomics

CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering

(2013) Prashant Mali et al.   NATURE BIOTECHNOLOGY

DNA targeting specificity of RNA-guided Cas9 nucleases

(2013) Patrick D Hsu et al.   NATURE BIOTECHNOLOGY

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

(2013) Seung Woo Cho et al.   NATURE BIOTECHNOLOGY

Multiplex and homologous recombination–mediated genome editing in Arabidopsis and Nicotiana benthamiana using guide RNA and Cas9

(2013) Jian-Feng Li et al.   NATURE BIOTECHNOLOGY

Targeted mutagenesis in the model plant Nicotiana benthamiana using Cas9 RNA-guided endonuclease

(2013) Vladimir Nekrasov et al.   NATURE BIOTECHNOLOGY

Targeted genome modification of crop plants using a CRISPR-Cas system

(2013) Qiwei Shan et al.   NATURE BIOTECHNOLOGY

Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system

(2013) David Bikard et al.   NUCLEIC ACIDS RESEARCH

Genetic Screens in Human Cells Using the CRISPR-Cas9 System

(2013) Tim Wang et al.   SCIENCE

Multiplex Genome Engineering Using CRISPR/Cas Systems

(2013) L. Cong et al.   SCIENCE

RNA-Guided Genome Editing for Target Gene Mutations in Wheat

(2013) Santosh Kumar Upadhyay et al.   G3-Genes Genomes Genetics

RNA-programmed genome editing in human cells

(2013) Martin Jinek et al.   eLife

Functional transient genetic transformation of Arabidopsis leaves by biolistic bombardment

(2009) Shoko Ueki et al.   Nature Protocols

The FAST technique: a simplified Agrobacterium-based transformation method for transient gene expression analysis in seedlings of Arabidopsis and other plant species

(2009) Jian-Feng Li et al.   Plant Methods