CRISPR/Cas9-gene editing approaches in plant breeding

Multiplex CRISPR/Cas9‐mediated mutagenesis of alfalfa FLOWERING LOCUS Ta1 (MsFTa1) leads to delayed flowering time with improved forage biomass yield and quality

(2023) Tezera W. Wolabu et al.   PLANT BIOTECHNOLOGY JOURNAL

CRISPR-Cas9-mediated knockout of CYP79D1 and CYP79D2 in cassava attenuates toxic cyanogen production

(2023) Michael A. Gomez et al.   Frontiers in Plant Science

Rapid detection of the pine wood nematode Bursaphelenchus xylophilus using recombinase polymerase amplification combined with CRISPR/Cas12a

(2023) Tingting Dai et al.   Crop Protection

From Genome Sequencing to CRISPR-Based Genome Editing for Climate-Resilient Forest Trees

(2022) Hieu Xuan Cao et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Increasing the Efficiency of Canola and Soybean GMO Detection and Quantification Using Multiplex Droplet Digital PCR

(2022) Tigst Demeke et al.   Biology-Basel

Improving environmental stress resilience in crops by genome editing: insights from extremophile plants

(2022) Mohamed Kouhen et al.   CRITICAL REVIEWS IN BIOTECHNOLOGY

CRISPR–Cas9-mediated chromosome engineering in Arabidopsis thaliana

(2022) Michelle Rönspies et al.   Nature Protocols

Development of late-bolting plants by CRISPR/Cas9-mediated genome editing from mesophyll protoplasts of lettuce

(2022) Seung Hee Choi et al.   PLANT CELL REPORTS

Inducible epigenome editing probes for the role of histone H3K4 methylation in Arabidopsis heat stress memory

(2022) Vicky Oberkofler et al.   PLANT PHYSIOLOGY

Challenges Facing CRISPR/Cas9-Based Genome Editing in Plants

(2022) Seungmin Son et al.   Frontiers in Plant Science

Designing Allele-Specific Competitive-Extension PCR-Based Assays for High-Throughput Genotyping and Gene Characterization

(2022) Ruslan Kalendar et al.   Frontiers in Molecular Biosciences

Engineering traits through CRISPR/cas genome editing in woody species to improve forest diversity and yield

(2022) Garima Thapliyal et al.   CRITICAL REVIEWS IN BIOTECHNOLOGY

Potato virus X ‐delivered CRISPR activation programs lead to strong endogenous gene induction and transient metabolic reprogramming in Nicotiana benthamiana

(2022) Sara Selma et al.   PLANT JOURNAL

Advances in Crop Breeding Through Precision Genome Editing

(2022) Gauri Nerkar et al.   Frontiers in Genetics

Culture-Free Phylogenetic Analysis of Legionella pneumophila Using Targeted CRISPR/Cas9 Next-Generation Sequencing

(2022) Ana Domazetovska et al.   Microbiology Spectrum

Heat Stress Induced Potato virus X-mediated CRISPR/Cas9 Genome Editing in Nicotiana benthamiana

(2022) Jelli Venkatesh et al.   Plant Breeding and Biotechnology

The Role of a Soybean 14-3-3 Gene (Glyma05g29080) on White Mold Resistance and Nodulation Investigations Using CRISPR-Cas9 Editing and RNA Silencing

(2022) Yunfang Zhang et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

The Versatile Type V CRISPR Effectors and Their Application Prospects

(2021) Baisong Tong et al.   Frontiers in Cell and Developmental Biology

CRISPR technology for abiotic stress resistant crop breeding

(2021) Lingling Ma et al.   PLANT GROWTH REGULATION

Detection of genome edits in plants—from editing to seed

(2021) Raymond D. Shillito et al.   IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-PLANT

CRISPR-Knockout of CSE Gene Improves Saccharification Efficiency by Reducing Lignin Content in Hybrid Poplar

(2021) Hyun-A Jang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

CRISPR/Cas9-mediated mutagenesis of WRKY3 and WRKY4 function decreases salt and Me-JA stress tolerance in Arabidopsis thaliana

(2021) Peng Li et al.   MOLECULAR BIOLOGY REPORTS

Event-specific PCR methods to quantify the genetically modified DBN9936 maize

(2021) Jun Li et al.   JOURNAL OF FOOD COMPOSITION AND ANALYSIS

CRISPR/Cas9-mediated mutation of 5-oxoprolinase gene confers resistance to sulfonamide compounds in Arabidopsis

(2021) Ga-Jin Baeg et al.   Plant Biotechnology Reports

Efficient Multi-Sites Genome Editing and Plant Regeneration via Somatic Embryogenesis in Picea glauca

(2021) Ying Cui et al.   Frontiers in Plant Science

Generalizable sgRNA design for improved CRISPR/Cas9 editing efficiency

(2020) Kasidet Hiranniramol et al.   BIOINFORMATICS

Identification and quantification of cassava starch adulteration in different food starches by droplet digital PCR

(2020) Jia Chen et al.   PLoS One

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

Prime genome editing in rice and wheat

(2020) Qiupeng Lin et al.   NATURE BIOTECHNOLOGY

Engineering herbicide resistance via prime editing in rice

(2020) Haroon Butt et al.   PLANT BIOTECHNOLOGY JOURNAL

Base Editing: The Ever Expanding Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) Tool Kit for Precise Genome Editing in Plants

(2020) Mahmuda Binte Monsur et al.   Genes

Evaluation of the CRISPR/Cas9 system for the development of resistance against Cotton leaf curl virus in model plants

(2020) Sehrish Khan et al.   PLANT PROTECTION SCIENCE

CRISPR-Cas9 mediated genome editing of drought and salt tolerance (OsDST) gene in indica mega rice cultivar MTU1010

(2020) V. V. Santosh Kumar et al.   PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS

Determinants of Base Editing Outcomes from Target Library Analysis and Machine Learning

(2020) Mandana Arbab et al.   CELL

Rapid and sensitive screening and identification of CRISPR/Cas9 edited rice plants using quantitative real-time PCR coupled with high resolution melting analysis

(2020) Rong Li et al.   FOOD CONTROL

Genome editing with CRISPR–Cas nucleases, base editors, transposases and prime editors

(2020) Andrew V. Anzalone et al.   NATURE BIOTECHNOLOGY

Sequence-specific prediction of the efficiencies of adenine and cytosine base editors

(2020) Myungjae Song et al.   NATURE BIOTECHNOLOGY

Targeted, efficient sequence insertion and replacement in rice

(2020) Yuming Lu et al.   NATURE BIOTECHNOLOGY

Production of Herbicide-Sensitive Strain to Prevent Volunteer Rice Infestation Using a CRISPR-Cas9 Cytidine Deaminase Fusion

(2020) Akira Komatsu et al.   Frontiers in Plant Science

The application of temperature sensitivity CRISPR/LbCpf1 (LbCas12a) mediated genome editing in allotetraploid cotton ( G. hirsutum ) and creation of nontransgenic, gossypol‐free cotton

(2020) Bo Li et al.   PLANT BIOTECHNOLOGY JOURNAL

Changing local recombination patterns in Arabidopsis by CRISPR/Cas mediated chromosome engineering

(2020) Carla Schmidt et al.   Nature Communications

Host susceptibility factors render ripe tomato fruit vulnerable to fungal disease despite active immune responses

(2020) Christian J Silva et al.   JOURNAL OF EXPERIMENTAL BOTANY

Editing miR482b and miR482c simultaneously by CRISPR/Cas9 enhanced tomato resistance to Phytophthora infestans

(2020) Yuhui Hong et al.   PHYTOPATHOLOGY

Creating highly efficient resistance against Wheat dwarf virus in barley by employing CRISPR/Cas9 system

(2019) András Kis et al.   PLANT BIOTECHNOLOGY JOURNAL

Gene Editing in Plants– Progress and Challenges

(2019) Yanfei Mao et al.   National Science Review

Enhanced rice salinity tolerance via CRISPR/Cas9-targeted mutagenesis of the OsRR22 gene

(2019) Anning Zhang et al.   MOLECULAR BREEDING

The potential of green synthesized zinc oxide nanoparticles as nutrient source for plant growth

(2019) Jagpreet Singh et al.   JOURNAL OF CLEANER PRODUCTION

CRISPR/Cas Genome Editing and Precision Plant Breeding in Agriculture

(2019) Kunling Chen et al.   Annual Review of Plant Biology

The next generation of CRISPR–Cas technologies and applications

(2019) Adrian Pickar-Oliver et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

CHOPCHOP v3: expanding the CRISPR web toolbox beyond genome editing

(2019) Kornel Labun et al.   NUCLEIC ACIDS RESEARCH

CRISPR/Cas9-mediated knockout of the RDR6 gene in Nicotiana benthamiana for efficient transient expression of recombinant proteins

(2019) Kouki Matsuo et al.   PLANTA

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

(2019) Zahra Hajiahmadi et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

A simple and reliable method for creating PCR-detectable mutants in Arabidopsis with the polycistronic tRNA–gRNA CRISPR/Cas9 system

(2019) Liangliang Hui et al.   ACTA PHYSIOLOGIAE PLANTARUM

H2O2-Based Method for Rapid Detection of Transgene-Free Rice Plants from Segregating CRISPR/Cas9 Genome-Edited Progenies

(2019) Tsung-Meng Wu et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

GmHsp90A2 is involved in soybean heat stress as a positive regulator

(2019) Yanzhong Huang et al.   PLANT SCIENCE

Integration of a FT expression cassette into CRISPR/Cas9 construct enables fast generation and easy identification of transgene-free mutants in Arabidopsis

(2019) Yuxin Cheng et al.   PLoS One

Identification of Transgene-Free CRISPR-Edited Plants of Rice, Tomato, and Arabidopsis by Monitoring DsRED Fluorescence in Dry Seeds

(2019) Norma Aliaga-Franco et al.   Frontiers in Plant Science

Engineering Abiotic Stress Tolerance via CRISPR-Cas mediated genome editing

(2019) Syed Adeel Zafar et al.   JOURNAL OF EXPERIMENTAL BOTANY

Multiplexed editing of a begomovirus genome restricts escape mutant formation and disease development

(2019) Anirban Roy et al.   PLoS One

OsSPL10, a SBP-Box Gene, Plays a Dual Role in Salt Tolerance and Trichome Formation in Rice (Oryza sativa L.)

(2019) Tao Lan et al.   G3-Genes Genomes Genetics

An efficient transgene-free DNA-editing system for Arabidopsis using a fluorescent marker

(2019) Lejun Ouyang et al.   BIOTECHNOLOGY LETTERS

SNP-CRISPR: A Web Tool for SNP-Specific Genome Editing

(2019) Chiao-Lin Chen et al.   G3-Genes Genomes Genetics

CRISPRMatch: An Automatic Calculation and Visualization Tool for High-throughput CRISPR Genome-editing Data Analysis

(2018) Qi You et al.   International Journal of Biological Sciences

Programmed Self-Elimination of the CRISPR/Cas9 Construct Greatly Accelerates the Isolation of Edited and Transgene-Free Rice Plants

(2018) Yubing He et al.   Molecular Plant

Integrated design, execution, and analysis of arrayed and pooled CRISPR genome-editing experiments

(2018) Matthew C Canver et al.   Nature Protocols

Genome editing in potato via CRISPR-Cas9 ribonucleoprotein delivery

(2018) Mariette Andersson et al.   PHYSIOLOGIA PLANTARUM

Establishing RNA virus resistance in plants by harnessing CRISPR immune system

(2018) Tong Zhang et al.   PLANT BIOTECHNOLOGY JOURNAL

Allele exchange at the EPSPS locus confers glyphosate tolerance in cassava

(2018) Aaron W. Hummel et al.   PLANT BIOTECHNOLOGY 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

CRISPR/Cas9-mediated gene targeting in Arabidopsis using sequential transformation

(2018) Daisuke Miki et al.   Nature Communications

A method for the production and expedient screening of CRISPR/Cas9-mediated non-transgenic mutant plants

(2018) Longzheng Chen et al.   Horticulture Research

Reduction of Tomato-Plant Chilling Tolerance by CRISPR–Cas9-Mediated SlCBF1 Mutagenesis

(2018) Rui Li et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Design of a bacterial speck resistant tomato by CRISPR/Cas9-mediated editing of SlJAZ2

(2018) Andrés Ortigosa et al.   PLANT BIOTECHNOLOGY JOURNAL

An efficient CRISPR vector toolbox for engineering large deletions in Arabidopsis thaliana

(2018) Rui Wu et al.   Plant Methods

Role of Papain-Like Cysteine Proteases in Plant Development

(2018) Huijuan Liu 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

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

(2017) Jingying Li et al.   Molecular Plant

CRISPR-S: an active interference element for a rapid and inexpensive selection of genome-edited, transgene-free rice plants

(2017) Hai-Ping Lu et al.   PLANT BIOTECHNOLOGY JOURNAL

CRISPR/Cas9 and TALENs generate heritable mutations for genes involved in small RNA processing of Glycine max and Medicago truncatula

(2017) Shaun J. Curtin et al.   PLANT BIOTECHNOLOGY JOURNAL

Production of low-Cs+ rice plants by inactivation of the K+ transporter OsHAK1 with the CRISPR-Cas system

(2017) Manuel Nieves-Cordones et al.   PLANT JOURNAL

OsARM1, an R2R3 MYB Transcription Factor, Is Involved in Regulation of the Response to Arsenic Stress in Rice

(2017) Feng-Zhu Wang et al.   Frontiers in Plant Science

Cas-analyzer: an online tool for assessing genome editing results using NGS data

(2016) Jeongbin Park et al.   BIOINFORMATICS

Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9

(2016) John G Doench et al.   NATURE BIOTECHNOLOGY

A proposed regulatory framework for genome-edited crops

(2016) Sanwen Huang et al.   NATURE GENETICS

CHOPCHOP v2: a web tool for the next generation of CRISPR genome engineering

(2016) Kornel Labun et al.   NUCLEIC ACIDS RESEARCH

Revolutionizing plant biology: multiple ways of genome engineering by CRISPR/Cas

(2016) Simon Schiml et al.   Plant Methods

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

(2016) Yi Zhang et al.   Nature Communications

Optimization of CRISPR/Cas9 genome editing to modify abiotic stress responses in plants

(2016) Yuriko Osakabe et al.   Scientific Reports

BATCH-GE: Batch analysis of Next-Generation Sequencing data for genome editing assessment

(2016) Annekatrien Boel et al.   Scientific Reports

CRISPR-ERA: a comprehensive design tool for CRISPR-mediated gene editing, repression and activation: Fig. 1.

(2015) Honglei Liu et al.   BIOINFORMATICS

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

(2015) Bernd Zetsche et al.   CELL

Editing plant genomes with CRISPR/Cas9

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

In vivo genome editing using Staphylococcus aureus Cas9

(2015) F. Ann Ran et al.   NATURE

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

(2015) Junhui Zhou et al.   PLANT JOURNAL

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

(2015) Sergei Svitashev et al.   PLANT PHYSIOLOGY

Towards social acceptance of plant breeding by genome editing

(2015) Motoko Araki et al.   TRENDS 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

Trends in global approvals of biotech crops (1992–2014)

(2015) Rhodora R Aldemita et al.   GM Crops & Food-Biotechnology in Agriculture and the Food Chain

Genome Engineering with Targetable Nucleases

(2014) Dana Carroll   Annual Review of Biochemistry

CRISPRdirect: software for designing CRISPR/Cas guide RNA with reduced off-target sites

(2014) Yuki Naito et al.   BIOINFORMATICS

Genome editing assessment using CRISPR Genome Analyzer (CRISPR-GA)

(2014) M. Guell et al.   BIOINFORMATICS

Fluorescence Reports Intact Quantum Dot Uptake into Roots and Translocation to Leaves of Arabidopsis thaliana and Subsequent Ingestion by Insect Herbivores

(2014) Yeonjong Koo et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Highly Specific and Efficient CRISPR/Cas9-Catalyzed Homology-Directed Repair inDrosophila

(2014) Scott J. Gratz et al.   GENETICS

E-CRISP: fast CRISPR target site identification

(2014) Florian Heigwer et al.   NATURE METHODS

CHOPCHOP: a CRISPR/Cas9 and TALEN web tool for genome editing

(2014) Tessa G. Montague et al.   NUCLEIC ACIDS RESEARCH

Repair of Site-Specific DNA Double-Strand Breaks in Barley Occurs via Diverse Pathways Primarily Involving the Sister Chromatid

(2014) G. T. H. Vu et al.   PLANT CELL

Both CRISPR/Cas-based nucleases and nickases can be used efficiently for genome engineering inArabidopsis thaliana

(2014) Friedrich Fauser et al.   PLANT JOURNAL

CRISPR/Cas9-mediated targeted mutagenesis in Nicotiana tabacum

(2014) Junping Gao et al.   PLANT MOLECULAR BIOLOGY

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

Allele-specific genome editing and correction of disease-associated phenotypes in rats using the CRISPR–Cas platform

(2014) K. Yoshimi et al.   Nature Communications

Promise and issues of genetically modified crops

(2013) Hao Chen et al.   CURRENT OPINION IN PLANT BIOLOGY

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

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

Mesoporous silica nanoparticles as a biomolecule delivery vehicle in plants

(2013) Hashmath I. Hussain et al.   JOURNAL OF NANOPARTICLE RESEARCH

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

(2013) Seung Woo Cho 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

RNA-programmed genome editing in human cells

(2013) Martin Jinek et al.   eLife

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

(2012) M. Jinek et al.   SCIENCE

Uptake and Distribution of Ultrasmall Anatase TiO2Alizarin Red S Nanoconjugates inArabidopsis thaliana

(2010) Jasmina Kurepa et al.   NANO LETTERS

Carbon Nanotubes as Molecular Transporters for Walled Plant Cells

(2009) Qiaoling Liu et al.   NANO LETTERS