Tools and targets: The dual role of plant viruses in CRISPR–Cas genome editing

Efficient Cas9 multiplex editing using unspaced sgRNA arrays engineering in a Potato virus X vector

(2021) Mireia Uranga et al.   PLANT JOURNAL

Plant Viruses: From Targets to Tools for CRISPR

(2021) Carla M. R. Varanda et al.   Viruses-Basel

Engineered miniature CRISPR-Cas system for mammalian genome regulation and editing

(2021) Xiaoshu Xu et al.   MOLECULAR CELL

Highly efficient heritable genome editing in wheat using an RNA virus and bypassing tissue culture

(2021) Tingdong Li et al.   Molecular Plant

Strong and tunable anti‐CRISPR/Cas activities in plants

(2021) Camilo Calvache et al.   PLANT BIOTECHNOLOGY JOURNAL

CRISPR-Cas12a Genome Editing at the Whole-Plant Level Using Two Compatible RNA Virus Vectors

(2021) Mireia Uranga et al.   CRISPR Journal

Reduced Enzymatic Browning in Potato Tubers by Specific Editing of a Polyphenol Oxidase Gene via Ribonucleoprotein Complexes Delivery of the CRISPR/Cas9 System

(2020) Matías Nicolás González et al.   Frontiers in Plant Science

Potato virus X Vector-Mediated DNA-Free genome editing in plants

(2020) Hirotaka Ariga et al.   PLANT AND CELL PHYSIOLOGY

CRISPR-induced indels and base editing using the Staphylococcus aureus Cas9 in potato

(2020) Florian Veillet et al.   PLoS One

Viral Delivery Systems for CRISPR

(2019) Christine Xu et al.   Viruses-Basel

Rescue of a plant cytorhabdovirus as versatile expression platforms for planthopper and cereal genomic studies

(2019) Qiang Gao et al.   NEW PHYTOLOGIST

A barley stripe mosaic virus‐based guide RNA delivery system for targeted mutagenesis in wheat and maize

(2019) Jiacheng Hu et al.   MOLECULAR PLANT PATHOLOGY

Using Metagenomics to Characterize an Expanding Virosphere

(2018) Yong-Zhen Zhang et al.   CELL

Microhomology-mediated end joining: Good, bad and ugly

(2018) Ja-Hwan Seol et al.   MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS

CRISPOR: intuitive guide selection for CRISPR/Cas9 genome editing experiments and screens

(2018) Jean-Paul Concordet et al.   NUCLEIC ACIDS RESEARCH

Genome editing in potato via CRISPR-Cas9 ribonucleoprotein delivery

(2018) Mariette Andersson et al.   PHYSIOLOGIA PLANTARUM

Novel alleles of rice eIF4G generated by CRISPR/Cas9-targeted mutagenesis confer resistance to Rice tungro spherical virus

(2018) Anca Macovei et al.   PLANT BIOTECHNOLOGY JOURNAL

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

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

Pea early-browning virus -mediated genome editing via the CRISPR/Cas9 system in Nicotiana benthamiana and Arabidopsis

(2018) Zahir Ali et al.   VIRUS RESEARCH

Susceptibility Genes to Plant Viruses

(2018) Hernan Garcia-Ruiz   Viruses-Basel

Efficient C-to-T base editing in plants using a fusion of nCas9 and human APOBEC3A

(2018) Yuan Zong et al.   NATURE BIOTECHNOLOGY

Development of Beet necrotic yellow vein virus -based vectors for multiple-gene expression and guide RNA delivery in plant genome editing

(2018) Ning Jiang et al.   PLANT BIOTECHNOLOGY JOURNAL

ICTV Virus Taxonomy Profile: Potyviridae

(2017) Stephen J Wylie et al.   JOURNAL OF GENERAL VIROLOGY

Generation of thermosensitive male-sterile maize by targeted knockout of the ZmTMS5 gene

(2017) Jun Li et al.   Journal of Genetics and Genomics

Gene Targeting by Homology-Directed Repair in Rice Using a Geminivirus-Based CRISPR/Cas9 System

(2017) Mugui Wang et al.   Molecular Plant

Multiplex Gene Editing in Rice Using the CRISPR-Cpf1 System

(2017) Mugui Wang et al.   Molecular Plant

Diversity and evolution of class 2 CRISPR–Cas systems

(2017) Sergey Shmakov et al.   NATURE REVIEWS MICROBIOLOGY

Non-homologous DNA end joining and alternative pathways to double-strand break repair

(2017) Howard H. Y. Chang et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Towards CRISPR/Cas crops - bringing together genomics and genome editing

(2017) Armin Scheben et al.   NEW PHYTOLOGIST

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

Generation of targeted mutant rice using a CRISPR-Cpf1 system

(2017) Rongfang Xu et al.   PLANT BIOTECHNOLOGY JOURNAL

High-efficiency gene targeting in hexaploid wheat using DNA replicons and CRISPR/Cas9

(2017) Javier Gil-Humanes et al.   PLANT JOURNAL

From classical mutagenesis to nuclease-based breeding - directing natural DNA repair for a natural end-product

(2017) Michael Pacher et al.   PLANT JOURNAL

Multiplexed Gene Editing and Protein Overexpression Using a Tobacco mosaic virus Viral Vector

(2017) Will B. Cody et al.   PLANT PHYSIOLOGY

CRISPR-Cpf1: A New Tool for Plant Genome Editing

(2017) Syed Shan-e-Ali Zaidi et al.   TRENDS IN PLANT SCIENCE

In vivo genome editing with a small Cas9 orthologue derived from Campylobacter jejuni

(2017) Eunji Kim et al.   Nature Communications

CRISPR/Cpf1-mediated DNA-free plant genome editing

(2017) Hyeran Kim et al.   Nature Communications

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

(2017) Zhen Liang et al.   Nature Communications

Gene Editing and Crop Improvement Using CRISPR-Cas9 System

(2017) Leena Arora et al.   Frontiers in Plant Science

Editing Citrus Genome via SaCas9/sgRNA System

(2017) Hongge Jia et al.   Frontiers in Plant Science

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

(2016) Carolin Anders et al.   MOLECULAR CELL

Engineering of CRISPR/Cas9-mediated potyvirus resistance in transgene-freeArabidopsisplants

(2016) Douglas E. Pyott et al.   MOLECULAR PLANT PATHOLOGY

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

(2016) Jeyabharathy Chandrasekaran et al.   MOLECULAR PLANT PATHOLOGY

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

(2016) Alexis C. Komor et al.   NATURE

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

(2016) Benjamin P. Kleinstiver et al.   NATURE

Enhancing homology-directed genome editing by catalytically active and inactive CRISPR-Cas9 using asymmetric donor DNA

(2016) Christopher D Richardson et al.   NATURE BIOTECHNOLOGY

AnAgrobacterium-delivered CRISPR/Cas9 system for high-frequency targeted mutagenesis in maize

(2016) Si Nian Char et al.   PLANT BIOTECHNOLOGY JOURNAL

Morphogenic Regulators Baby boom and Wuschel Improve Monocot Transformation

(2016) Keith Lowe et al.   PLANT CELL

Targeted nucleotide editing using hybrid prokaryotic and vertebrate adaptive immune systems

(2016) K. Nishida et al.   SCIENCE

Repair Pathway Choices and Consequences at the Double-Strand Break

(2016) Raphael Ceccaldi et al.   TRENDS IN CELL BIOLOGY

Efficient and transgene-free genome editing in wheat through transient expression of CRISPR/Cas9 DNA or RNA

(2016) Yi Zhang et al.   Nature Communications

Recessive Resistance to Plant Viruses: Potential Resistance Genes Beyond Translation Initiation Factors

(2016) Masayoshi Hashimoto et al.   Frontiers in Microbiology

Engineering Plant Immunity: Using CRISPR/Cas9 to Generate Virus Resistance

(2016) Syed Shan-e-Ali Zaidi et al.   Frontiers in Plant Science

Geminivirus-Mediated Genome Editing in Potato (Solanum tuberosum L.) Using Sequence-Specific Nucleases

(2016) Nathaniel M. Butler et al.   Frontiers in Plant Science

An Overview of CRISPR-Based Tools and Their Improvements: New Opportunities in Understanding Plant–Pathogen Interactions for Better Crop Protection

(2016) Abdellah Barakate et al.   Frontiers in Plant Science

CRISPR/Cas9-Mediated Immunity to Geminiviruses: Differential Interference and Evasion

(2016) Zahir Ali et al.   Scientific Reports

Highly specific targeted mutagenesis in plants using Staphylococcus aureus Cas9

(2016) Hidetaka Kaya 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

Efficient targeted mutagenesis of rice and tobacco genomes using Cpf1 from Francisella novicida

(2016) Akira Endo et al.   Scientific Reports

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

(2015) Bernd Zetsche et al.   CELL

Discovery and Functional Characterization of Diverse Class 2 CRISPR-Cas Systems

(2015) Sergey Shmakov et al.   MOLECULAR CELL

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

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

Geminiviruses for biotechnology: the art of parasite taming

(2015) Rosa Lozano-Durán   NEW PHYTOLOGIST

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

(2015) Jeannette Steinert et al.   PLANT JOURNAL

Cas9-Guide RNA Directed Genome Editing in Soybean

(2015) Zhongsen Li et al.   PLANT PHYSIOLOGY

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

(2015) Kangquan Yin et al.   Scientific Reports

Agrobacterium: nature’s genetic engineer

(2015) Eugene W. Nester   Frontiers in Plant Science

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

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

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

CRISPR-Cas9 Knockin Mice for Genome Editing and Cancer Modeling

(2014) Randall J. Platt et al.   CELL

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

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

Tobacco rattle virus–based virus-induced gene silencing in Nicotiana benthamiana

(2014) Muthappa Senthil-Kumar et al.   Nature Protocols

DNA Replicons for Plant Genome Engineering

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

Two Arabidopsis Loci Encode Novel Eukaryotic Initiation Factor 4E Isoforms That Are Functionally Distinct from the Conserved Plant Eukaryotic Initiation Factor 4E

(2014) R. M. Patrick et al.   PLANT PHYSIOLOGY

Arabidopsis Protein Phosphatase DBP1 Nucleates a Protein Network with a Role in Regulating Plant Defense

(2014) José Luis Carrasco 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

The Expanding Functions of Cellular Helicases: The Tombusvirus RNA Replication Enhancer Co-opts the Plant eIF4AIII-Like AtRH2 and the DDX5-Like AtRH5 DEAD-Box RNA Helicases to Promote Viral Asymmetric RNA Replication

(2014) Nikolay Kovalev et al.   PLoS Pathogens

COSMID: A Web-based Tool for Identifying and Validating CRISPR/Cas Off-target Sites

(2014) Thomas J Cradick et al.   Molecular Therapy-Nucleic Acids

Efficient genome editing in plants using a CRISPR/Cas system

(2013) Zhengyan Feng et al.   CELL RESEARCH

Targeted mutagenesis in rice using CRISPR-Cas system

(2013) Jin Miao et al.   CELL RESEARCH

RNA-Guided Genome Editing in Plants Using a CRISPR–Cas System

(2013) Kabin Xie et al.   Molecular Plant

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

Trait stacking via targeted genome editing

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

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

(2013) Holger Puchta et al.   PLANT JOURNAL

Precise plant breeding using new genome editing techniques: opportunities, safety and regulation in the EU

(2013) Frank Hartung et al.   PLANT JOURNAL

Efficient genome engineering in human pluripotent stem cells using Cas9 from Neisseria meningitidis

(2013) Z. Hou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Pivoting the Plant Immune System from Dissection to Deployment

(2013) J. L. Dangl et al.   SCIENCE

RNA-Guided Human Genome Engineering via Cas9

(2013) P. Mali et al.   SCIENCE

Multiplex Genome Engineering Using CRISPR/Cas Systems

(2013) L. Cong et al.   SCIENCE

TALENs: a widely applicable technology for targeted genome editing

(2012) J. Keith Joung et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Translation Initiation Factor AteIF(iso)4E Is Involved in Selective mRNA Translation in Arabidopsis Thaliana Seedlings

(2012) Ana Valeria Martínez-Silva et al.   PLoS One

Cas9-crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria

(2012) G. Gasiunas 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

Interaction of the Trans-Frame Potyvirus Protein P3N-PIPO with Host Protein PCaP1 Facilitates Potyvirus Movement

(2012) Paramasivan Vijayapalani et al.   PLoS Pathogens

The dependence of viral RNA replication on co-opted host factors

(2011) Peter D. Nagy et al.   NATURE REVIEWS MICROBIOLOGY

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

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

Targeting DNA Double-Strand Breaks with TAL Effector Nucleases

(2010) M. Christian et al.   GENETICS

Genome editing with engineered zinc finger nucleases

(2010) Fyodor D. Urnov et al.   NATURE REVIEWS GENETICS

Plant immunity: towards an integrated view of plant–pathogen interactions

(2010) Peter N. Dodds et al.   NATURE REVIEWS GENETICS

DNA-Binding Protein Phosphatase AtDBP1 Mediates Susceptibility to Two Potyviruses in Arabidopsis

(2010) M. J. Castello et al.   PLANT PHYSIOLOGY

Nontransgenic Genome Modification in Plant Cells

(2010) I. Marton et al.   PLANT PHYSIOLOGY

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

A Family of Plasmodesmal Proteins with Receptor-Like Properties for Plant Viral Movement Proteins

(2010) Khalid Amari et al.   PLoS Pathogens

A Host RNA Helicase-Like Protein, AtRH8, Interacts with the Potyviral Genome-Linked Protein, VPg, Associates with the Virus Accumulation Complex, and Is Essential for Infection

(2009) T.-S. Huang et al.   PLANT PHYSIOLOGY

Translation elongation factor 1A is a component of the tombusvirus replicase complex and affects the stability of the p33 replication co-factor

(2009) Zhenghe Li et al.   VIROLOGY

Small CRISPR RNAs Guide Antiviral Defense in Prokaryotes

(2008) S. J. J. Brouns et al.   SCIENCE

Eukaryotic elongation factor 1A interacts with Turnip mosaic virus RNA-dependent RNA polymerase and VPg-Pro in virus-induced vesicles

(2008) Karine Thivierge et al.   VIROLOGY