Progress of targeted genome modification approaches in higher plants

Multi-gene engineering in plants with RNA-guided Cas9 nuclease

(2016) Oleg Raitskin et al.   CURRENT OPINION IN BIOTECHNOLOGY

Efficient targeted mutagenesis in soybean by TALENs and CRISPR/Cas9

(2016) Hongyang Du et al.   JOURNAL OF BIOTECHNOLOGY

Development of broad virus resistance in non-transgenic cucumber using CRISPR/Cas9 technology

(2016) Jeyabharathy Chandrasekaran et al.   MOLECULAR PLANT PATHOLOGY

High-fidelity CRISPR–Cas9 nucleases with no detectable genome-wide off-target effects

(2016) Benjamin P. Kleinstiver et al.   NATURE

A proposed regulatory framework for genome-edited crops

(2016) Sanwen Huang et al.   NATURE GENETICS

Cisgenesis and genome editing: combining concepts and efforts for a smarter use of genetic resources in crop breeding

(2016) Teodoro Cardi   PLANT BREEDING

The CRISPR-Cas9 technology: Closer to the ultimate toolkit for targeted genome editing

(2016) Francis Quétier   PLANT SCIENCE

CRISPR/Cas9-mediated mutagenesis of the RIN locus that regulates tomato fruit ripening

(2015) Yasuhiro Ito et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

The CRISPR/Cas9 system for plant genome editing and beyond

(2015) Luisa Bortesi et al.   BIOTECHNOLOGY ADVANCES

Gene stacking in plant cell using recombinases for gene integration and nucleases for marker gene deletion

(2015) Soumen Nandy et al.   BMC BIOTECHNOLOGY

Targeted genome modifications in soybean with CRISPR/Cas9

(2015) Thomas B Jacobs et al.   BMC BIOTECHNOLOGY

Cpf1 Is a Single RNA-Guided Endonuclease of a Class 2 CRISPR-Cas System

(2015) Bernd Zetsche et al.   CELL

Plant genome editing by novel tools: TALEN and other sequence specific nucleases

(2015) Thorben Sprink et al.   CURRENT OPINION IN BIOTECHNOLOGY

Editing plant genomes with CRISPR/Cas9

(2015) Khaoula Belhaj et al.   CURRENT OPINION IN BIOTECHNOLOGY

Progress, challenges and the future of crop genomes

(2015) Todd P Michael et al.   CURRENT OPINION IN PLANT BIOLOGY

Generation of artificial drooping leaf mutants by CRISPR-Cas9 technology in rice

(2015) Takuyuki Ikeda et al.   GENES & GENETIC SYSTEMS

Genome editing in plants via designed zinc finger nucleases

(2015) Joseph F. Petolino   IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-PLANT

A modular gene targeting system for sequential transgene stacking in plants

(2015) Sandeep Kumar et al.   JOURNAL OF BIOTECHNOLOGY

Gene targeting and editing in crop plants: a new era of precision opportunities

(2015) Amy R. Rinaldo et al.   MOLECULAR BREEDING

Enrichments of gene replacement events by Agrobacterium-mediated recombinase-mediated cassette exchange

(2015) Hiroyasu Ebinuma et al.   MOLECULAR BREEDING

Efficient Virus-Mediated Genome Editing in Plants Using the CRISPR/Cas9 System

(2015) Zahir Ali et al.   Molecular Plant

Transient Expression of Virally Delivered Meganuclease In Planta Generates Inherited Genomic Deletions

(2015) Arik Honig et al.   Molecular Plant

High-Efficiency Genome Editing in Arabidopsis Using YAO Promoter-Driven CRISPR/Cas9 System

(2015) Liuhua Yan et al.   Molecular Plant

A Robust CRISPR/Cas9 System for Convenient, High-Efficiency Multiplex Genome Editing in Monocot and Dicot Plants

(2015) Xingliang Ma et al.   Molecular Plant

In vivo genome editing using Staphylococcus aureus Cas9

(2015) F. Ann Ran 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

Targeted gene exchange in plant cells mediated by a zinc finger nuclease double cut

(2015) Katja Schneider et al.   PLANT BIOTECHNOLOGY JOURNAL

Oligonucleotide-directed mutagenesis for precision gene editing

(2015) Noel J. Sauer et al.   PLANT BIOTECHNOLOGY JOURNAL

Improving cold storage and processing traits in potato through targeted gene knockout

(2015) Benjamin M. Clasen et al.   PLANT BIOTECHNOLOGY JOURNAL

Creation of fragrant rice by targeted knockout of theOsBADH2gene using TALEN technology

(2015) Qiwei Shan et al.   PLANT BIOTECHNOLOGY JOURNAL

The long road to recombinase-mediated plant transformation

(2015) David W. Ow   PLANT BIOTECHNOLOGY JOURNAL

Genetic spell-checking: gene editing using single-stranded DNA oligonucleotides

(2015) Natalia Rivera-Torres et al.   PLANT BIOTECHNOLOGY JOURNAL

Designed nucleases for targeted genome editing

(2015) Junwon Lee et al.   PLANT BIOTECHNOLOGY JOURNAL

Multiplexed, targeted gene editing inNicotiana benthamianafor glyco-engineering and monoclonal antibody production

(2015) Jin Li et al.   PLANT BIOTECHNOLOGY JOURNAL

Development of germ-line-specific CRISPR-Cas9 systems to improve the production of heritable gene modifications inArabidopsis

(2015) Yanfei Mao et al.   PLANT BIOTECHNOLOGY JOURNAL

Use of designer nucleases for targeted gene and genome editing in plants

(2015) Donald P. Weeks et al.   PLANT BIOTECHNOLOGY JOURNAL

Gene stacking by recombinases

(2015) Vibha Srivastava et al.   PLANT BIOTECHNOLOGY JOURNAL

Efficient targeted mutagenesis in potato by the CRISPR/Cas9 system

(2015) Shaohui Wang et al.   PLANT CELL REPORTS

Parameters affecting frequency of CRISPR/Cas9 mediated targeted mutagenesis in rice

(2015) Masafumi Mikami et al.   PLANT CELL REPORTS

Gene targeting by the TAL effector PthXo2 reveals cryptic resistance gene for bacterial blight of rice

(2015) Junhui Zhou et al.   PLANT JOURNAL

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

A Universal Positive-Negative Selection System for Gene Targeting in Plants Combining an Antibiotic Resistance Gene and Its Antisense RNA

(2015) Ayako Nishizawa-Yokoi et al.   PLANT PHYSIOLOGY

Cas9-Guide RNA Directed Genome Editing in Soybean

(2015) Zhongsen Li et al.   PLANT PHYSIOLOGY

A CRISPR/Cas9 Toolbox for Multiplexed Plant Genome Editing and Transcriptional Regulation

(2015) Levi G. Lowder et al.   PLANT PHYSIOLOGY

Targeted Mutagenesis, Precise Gene Editing, and Site-Specific Gene Insertion in Maize Using Cas9 and Guide RNA

(2015) Sergei Svitashev et al.   PLANT PHYSIOLOGY

CRISPR/Cas9-mediated genome editing and gene replacement in plants: Transitioning from lab to field

(2015) Scott M. Schaeffer et al.   PLANT SCIENCE

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

Rationally engineered Cas9 nucleases with improved specificity

(2015) I. M. Slaymaker et al.   SCIENCE

Targeted mutagenesis in soybean using the CRISPR-Cas9 system

(2015) Xianjun Sun et al.   Scientific Reports

A geminivirus-based guide RNA delivery system for CRISPR/Cas9 mediated plant genome editing

(2015) Kangquan Yin et al.   Scientific Reports

Targeted Modification of Gene Function Exploiting Homology-Directed Repair of TALEN-Mediated Double-Strand Breaks in Barley

(2015) Nagaveni Budhagatapalli et al.   G3-Genes Genomes Genetics

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

Establishing a CRISPR–Cas-like immune system conferring DNA virus resistance in plants

(2015) Xiang Ji et al.   Nature Plants

Conferring resistance to geminiviruses with the CRISPR–Cas prokaryotic immune system

(2015) Nicholas J. Baltes et al.   Nature Plants

Gene Editing by Co-Transformation of TALEN and Chimeric RNA/DNA Oligonucleotides on the Rice OsEPSPS Gene and the Inheritance of Mutations

(2015) Mugui Wang et al.   PLoS One

CRISPR/Cas9-Mediated Genome Editing in Soybean Hairy Roots

(2015) Yupeng Cai et al.   PLoS One

TALEN-Based Mutagenesis of Lipoxygenase LOX3 Enhances the Storage Tolerance of Rice (Oryza sativa) Seeds

(2015) Lei Ma et al.   PLoS One

Generation and Inheritance of Targeted Mutations in Potato (Solanum tuberosum L.) Using the CRISPR/Cas System

(2015) Nathaniel M. Butler et al.   PLoS One

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

(2015) Di Fan et al.   Scientific Reports

A CRISPR/Cas9 toolkit for multiplex genome editing in plants

(2014) Hui-Li Xing et al.   BMC PLANT BIOLOGY

The CRISPR–Cas system for plant genome editing: advances and opportunities

(2014) Vinay Kumar et al.   JOURNAL OF EXPERIMENTAL BOTANY

Genome-Wide Prediction of Highly Specific Guide RNA Spacers for CRISPR–Cas9-Mediated Genome Editing in Model Plants and Major Crops

(2014) Kabin Xie et al.   Molecular Plant

An Open-Source System for In Planta Gene Stacking by Bxb1 and Cre Recombinases

(2014) Lili Hou et al.   Molecular Plant

Programmable RNA recognition and cleavage by CRISPR/Cas9

(2014) Mitchell R. O’Connell et al.   NATURE

Simultaneous editing of three homoeoalleles in hexaploid bread wheat confers heritable resistance to powdery mildew

(2014) Yanpeng Wang et al.   NATURE BIOTECHNOLOGY

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

(2014) Huanbin Zhou et al.   NUCLEIC ACIDS RESEARCH

Genome Editing with Engineered Nucleases in Plants

(2014) Y. Osakabe et al.   PLANT AND CELL PHYSIOLOGY

New wind in the sails: improving the agronomic value of crop plants through RNAi-mediated gene silencing

(2014) Aline Koch 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

Improved soybean oil quality by targeted mutagenesis of the fatty acid desaturase 2 gene family

(2014) William Haun et al.   PLANT BIOTECHNOLOGY JOURNAL

DNA Replicons for Plant Genome Engineering

(2014) N. J. Baltes et al.   PLANT CELL

Sterol Side Chain Reductase 2 Is a Key Enzyme in the Biosynthesis of Cholesterol, the Common Precursor of Toxic Steroidal Glycoalkaloids in Potato

(2014) S. Sawai et al.   PLANT CELL

Precision genome editing in plants via gene targeting andpiggyBac-mediated marker excision

(2014) Ayako Nishizawa-Yokoi et al.   PLANT JOURNAL

The CRISPR/Cas system can be used as nuclease forin plantagene targeting and as paired nickases for directed mutagenesis in Arabidopsis resulting in heritable progeny

(2014) Simon Schiml et al.   PLANT JOURNAL

The MET1b gene encoding a maintenance DNA methyltransferase is indispensable for normal development in rice

(2014) Takaki Yamauchi et al.   PLANT MOLECULAR BIOLOGY

CRISPR/Cas9-mediated targeted mutagenesis in Nicotiana tabacum

(2014) Junping Gao et al.   PLANT MOLECULAR BIOLOGY

Hairy Root Transformation Using Agrobacterium rhizogenes as a Tool for Exploring Cell Type-Specific Gene Expression and Function Using Tomato as a Model

(2014) M. Ron et al.   PLANT PHYSIOLOGY

Targeted Mutagenesis of the Tomato PROCERA Gene Using Transcription Activator-Like Effector Nucleases

(2014) V. S. Lor et al.   PLANT PHYSIOLOGY

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

Precision genetic modifications: a new era in molecular biology and crop improvement

(2014) Franziska Fichtner et al.   PLANTA

Targeted mutagenesis using zinc-finger nucleases in perennial fruit trees

(2014) Reut Peer 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

Plant Genome Engineering with Sequence-Specific Nucleases

(2013) Daniel F. Voytas   Annual Review of Plant Biology

Targeted mutagenesis in rice using CRISPR-Cas system

(2013) Jin Miao et al.   CELL RESEARCH

Gene targeting in plants: 25 years later

(2013) Holger Puchta et al.   INTERNATIONAL JOURNAL OF DEVELOPMENTAL BIOLOGY

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

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

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

Demonstration of CRISPR/Cas9/sgRNA-mediated targeted gene modification in Arabidopsis, tobacco, sorghum and rice

(2013) Wenzhi Jiang et al.   NUCLEIC ACIDS RESEARCH

Gene Editing a Constitutively Active OsRac1 by Homologous Recombination-Based Gene Targeting Induces Immune Responses in Rice

(2013) Thu Thi Dang et al.   PLANT AND CELL PHYSIOLOGY

A Mutated Cytosine Deaminase Gene, codA (D314A), as an Efficient Negative Selection Marker for Gene Targeting in Rice

(2013) Keishi Osakabe et al.   PLANT AND CELL PHYSIOLOGY

Trait stacking via targeted genome editing

(2013) William M. Ainley et al.   PLANT BIOTECHNOLOGY JOURNAL

Targeted molecular trait stacking in cotton through targeted double-strand break induction

(2013) Kathleen D'Halluin et al.   PLANT BIOTECHNOLOGY JOURNAL

Targeted genome modification technologies and their applications in crop improvements

(2013) Kunling Chen et al.   PLANT CELL REPORTS

Site-specific T-DNA integration in Arabidopsis thaliana mediated by the combined action of CRE recombinase and ϕC31 integrase

(2013) Annelies De Paepe et al.   PLANT JOURNAL

Male-sterile maize plants produced by targeted mutagenesis of the cytochrome P450-like gene (MS26) using a re-designed I-CreI homing endonuclease

(2013) Vesna Djukanovic et al.   PLANT JOURNAL

Synthetic nucleases for genome engineering in plants: prospects for a bright future

(2013) Holger Puchta et al.   PLANT JOURNAL

TAL effector nucleases induce mutations at a pre-selected location in the genome of primary barley transformants

(2013) Toni Wendt et al.   PLANT MOLECULAR BIOLOGY

Deployment of new biotechnologies in plant breeding

(2012) Maria Lusser et al.   NATURE BIOTECHNOLOGY

High-efficiency TALEN-based gene editing produces disease-resistant rice

(2012) Ting Li et al.   NATURE BIOTECHNOLOGY

Development of an Efficient Agrobacterium-Mediated Gene Targeting System for Rice and Analysis of Rice Knockouts Lacking Granule-Bound Starch Synthase (Waxy) and β1,2-Xylosyltransferase

(2012) Kenjirou Ozawa et al.   PLANT AND CELL PHYSIOLOGY

Marker-free site-specific gene integration in rice based on the use of two recombination systems

(2012) Soumen Nandy et al.   PLANT BIOTECHNOLOGY JOURNAL

ZFN-mediated gene targeting of the Arabidopsisprotoporphyrinogen oxidasegene throughAgrobacterium-mediated floral dip transformation

(2012) Sylvia de Pater et al.   PLANT BIOTECHNOLOGY JOURNAL

Targeted disruption of an orthologue of DOMAINS REARRANGED METHYLASE 2, OsDRM2, impairs the growth of rice plants by abnormal DNA methylation

(2012) Satoru Moritoh et al.   PLANT JOURNAL

A null mutation of ROS1a for DNA demethylation in rice is not transmittable to progeny

(2012) Akemi Ono et al.   PLANT JOURNAL

Transcription Activator-Like Effector Nucleases Enable Efficient Plant Genome Engineering

(2012) Y. Zhang et al.   PLANT PHYSIOLOGY

In planta gene targeting

(2012) F. Fauser et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

(2012) M. Jinek et al.   SCIENCE

Multiple roles of the ER stress sensor IRE1 demonstrated by gene targeting in rice

(2012) Yuhya Wakasa et al.   Scientific Reports

Recombinase-mediated Gene Stacking as a Transformation Operating SystemF

(2011) David W. Ow   Journal of Integrative Plant Biology

Efficient design and assembly of custom TALEN and other TAL effector-based constructs for DNA targeting

(2011) Tomas Cermak et al.   NUCLEIC ACIDS RESEARCH

Cre-loxP mediated marker elimination and gene reactivation at the waxy locus created in rice genome based on strong positive-negative selection

(2011) Rie Terada et al.   Plant Biotechnology

Targeted Mutagenesis of Duplicated Genes in Soybean with Zinc-Finger Nucleases

(2011) S. J. Curtin et al.   PLANT PHYSIOLOGY

Application of Gene Targeting to Designed Mutation Breeding of High-Tryptophan Rice

(2011) H. Saika et al.   PLANT PHYSIOLOGY

De novo-engineered transcription activator-like effector (TALE) hybrid nuclease with novel DNA binding specificity creates double-strand breaks

(2011) M. M. Mahfouz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Targeting DNA Double-Strand Breaks with TAL Effector Nucleases

(2010) M. Christian et al.   GENETICS

Site-specific gene integration technologies for crop improvement

(2010) Vibha Srivastava et al.   IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-PLANT

TAL nucleases (TALNs): hybrid proteins composed of TAL effectors and FokI DNA-cleavage domain

(2010) Ting Li et al.   NUCLEIC ACIDS RESEARCH

Site-specific gene integration in rice genome mediated by the FLP-FRT recombination system

(2010) Soumen Nandy et al.   PLANT BIOTECHNOLOGY JOURNAL

Recombinase technology: applications and possibilities

(2010) Yueju Wang et al.   PLANT CELL REPORTS

Stacking Multiple Transgenes at a Selected Genomic Site via Repeated Recombinase-Mediated DNA Cassette Exchanges

(2010) Z. Li et al.   PLANT PHYSIOLOGY

Nontransgenic Genome Modification in Plant Cells

(2010) I. Marton et al.   PLANT PHYSIOLOGY

High frequency targeted mutagenesis in Arabidopsis thaliana using zinc finger nucleases

(2010) F. Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Site-directed mutagenesis in Arabidopsis using custom-designed zinc finger nucleases

(2010) K. Osakabe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-frequency modification of plant genes using engineered zinc-finger nucleases

(2009) Jeffrey A. Townsend et al.   NATURE

Precise genome modification in the crop species Zea mays using zinc-finger nucleases

(2009) Vipula K. Shukla et al.   NATURE

Targeted integration and removal of transgenes in hybrid aspen (Populus tremula L. x P. tremuloides Michx.) using site-specific recombination systems

(2009) M. Fladung et al.   PLANT BIOLOGY

ZFN-induced mutagenesis and gene-targeting in Arabidopsis throughAgrobacterium-mediated floral dip transformation

(2009) Sylvia de Pater et al.   PLANT BIOTECHNOLOGY JOURNAL

Expression of a transgene exchanged by the recombinase-mediated cassette exchange (RMCE) method in plants

(2009) Kazuya Nanto et al.   PLANT CELL REPORTS

Homologous recombination-mediated knock-in targeting of theMET1agene for a maintenance DNA methyltransferase reproducibly reveals dosage-dependent spatiotemporal gene expression in rice

(2009) Takaki Yamauchi et al.   PLANT JOURNAL

Heritable targeted mutagenesis in maize using a designed endonuclease

(2009) Huirong Gao et al.   PLANT JOURNAL

Site-Specific Integration of Transgenes in Soybean via Recombinase-Mediated DNA Cassette Exchange

(2009) Z. Li et al.   PLANT PHYSIOLOGY