Plant–pathogen interactions: toward development of next-generation disease-resistant plants

Effector-Triggered Immunity: From Pathogen Perception to Robust Defense

(2015) Haitao Cui et al.   Annual Review of Plant Biology

“Off-Spotter”: very fast and exhaustive enumeration of genomic lookalikes for designing CRISPR/Cas guide RNAs

(2015) Venetia Pliatsika et al.   Biology Direct

The CRISPR/Cas9 system for plant genome editing and beyond

(2015) Luisa Bortesi et al.   BIOTECHNOLOGY ADVANCES

Editing plant genomes with CRISPR/Cas9

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

Stromules: Signal Conduits for Plant Immunity

(2015) Yangnan Gu et al.   DEVELOPMENTAL CELL

Chloroplast Stromules Function during Innate Immunity

(2015) Jeffrey L. Caplan et al.   DEVELOPMENTAL CELL

RNA-guided CRISPR-Cas technologies for genome-scale investigation of disease processes

(2015) Sean E Humphrey et al.   Journal of Hematology & Oncology

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

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

Transcriptomics-based analysis using RNA-Seq of the coconut (Cocos nucifera) leaf in response to yellow decline phytoplasma infection

(2015) Naghmeh Nejat et al.   MOLECULAR GENETICS AND GENOMICS

XA23 Is an Executor R Protein and Confers Broad-Spectrum Disease Resistance in Rice

(2015) Chunlian Wang et al.   Molecular Plant

The receptor-like cytoplasmic kinase PCRK1 contributes to pattern-triggered immunity againstPseudomonas syringaeinArabidopsis thaliana

(2015) Suma Sreekanta et al.   NEW PHYTOLOGIST

Transcriptional networks in plant immunity

(2015) Kenichi Tsuda et al.   NEW PHYTOLOGIST

Genetic engineering of theXa10promoter for broad-spectrum and durable resistance toXanthomonas oryzaepv.oryzae

(2015) Xuan Zeng et al.   PLANT BIOTECHNOLOGY JOURNAL

Heritable site-specific mutagenesis using TALENs in maize

(2015) Si Nian Char et al.   PLANT BIOTECHNOLOGY JOURNAL

Revealing Shared and Distinct Gene Network Organization in Arabidopsis Immune Responses by Integrative Analysis

(2015) Xiaobao Dong et al.   PLANT PHYSIOLOGY

Immunity pipelines

(2015) Annalisa M. VanHook   Science Signaling

β-glucans and eicosapolyenoic acids as MAMPs in plant–oomycete interactions: past and present

(2015) Sara M. Robinson et al.   Frontiers in Plant Science

Focus issue on plant immunity: from model systems to crop species

(2015) Benjamin Schwessinger et al.   Frontiers in Plant Science

Immunity pipelines

(2015) Annalisa M. VanHook   Science Signaling

CRISPR MultiTargeter: A Web Tool to Find Common and Unique CRISPR Single Guide RNA Targets in a Set of Similar Sequences

(2015) Sergey V. Prykhozhij et al.   PLoS One

CCTop: An Intuitive, Flexible and Reliable CRISPR/Cas9 Target Prediction Tool

(2015) Manuel Stemmer et al.   PLoS One

Susceptibility Genes 101: How to Be a Good Host

(2014) Chris C.N. van Schie et al.   Annual Review of Phytopathology

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

(2014) Yuki Naito et al.   BIOINFORMATICS

CasOT: a genome-wide Cas9/gRNA off-target searching tool

(2014) A. Xiao et al.   BIOINFORMATICS

Cas-OFFinder: a fast and versatile algorithm that searches for potential off-target sites of Cas9 RNA-guided endonucleases

(2014) S. Bae et al.   BIOINFORMATICS

A CRISPR/Cas9 toolkit for multiplex genome editing in plants

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

TAL effectors: tools for DNA Targeting

(2014) R. Jankele et al.   Briefings in Functional Genomics

Correction of a genetic disease by CRISPR-Cas9-mediated gene editing in mouse spermatogonial stem cells

(2014) Yuxuan Wu et al.   CELL RESEARCH

Whole-Genome Sequencing Analysis Reveals High Specificity of CRISPR/Cas9 and TALEN-Based Genome Editing in Human iPSCs

(2014) Cory Smith et al.   Cell Stem Cell

Toward understanding of rice innate immunity againstMagnaporthe oryzae

(2014) P. Azizi et al.   CRITICAL REVIEWS IN BIOTECHNOLOGY

Filamentous pathogen effector functions: of pathogens, hosts and microbiomes

(2014) Hanna Rovenich et al.   CURRENT OPINION IN PLANT BIOLOGY

A trade off between mlo resistance to powdery mildew and increased susceptibility of barley to a newly important disease, Ramularia leaf spot

(2014) Graham R. D. McGrann et al.   JOURNAL OF EXPERIMENTAL BOTANY

Plant PRRs and the Activation of Innate Immune Signaling

(2014) Alberto P. Macho et al.   MOLECULAR CELL

Effectors as Tools in Disease Resistance Breeding Against Biotrophic, Hemibiotrophic, and Necrotrophic Plant Pathogens

(2014) Vivianne G. A. A. Vleeshouwers et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Cross-bred crops get fit faster

(2014) Natasha Gilbert   NATURE

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

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

(2014) Yanpeng Wang et al.   NATURE BIOTECHNOLOGY

Genome-wide analysis reveals characteristics of off-target sites bound by the Cas9 endonuclease

(2014) Cem Kuscu et al.   NATURE BIOTECHNOLOGY

Fusion of catalytically inactive Cas9 to FokI nuclease improves the specificity of genome modification

(2014) John P Guilinger et al.   NATURE BIOTECHNOLOGY

Gene editing: how to stay on-target with CRISPR

(2014) Vivien Marx   NATURE METHODS

E-CRISP: fast CRISPR target site identification

(2014) Florian Heigwer et al.   NATURE METHODS

Genome editing in rice and wheat using the CRISPR/Cas system

(2014) Qiwei Shan et al.   Nature Protocols

SAPTA: a new design tool for improving TALE nuclease activity

(2014) Yanni Lin et al.   NUCLEIC ACIDS RESEARCH

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

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

Classification and evolution of type II CRISPR-Cas systems

(2014) Krzysztof Chylinski et al.   NUCLEIC ACIDS RESEARCH

Glomus mosseae bioprotection against aster yellows phytoplasma (16srI-B) and Spiroplasma citri infection in Madagascar periwinkle

(2014) Monther Mohumad Tahat et al.   PHYSIOLOGICAL AND MOLECULAR PLANT PATHOLOGY

Genome Editing with Engineered Nucleases in Plants

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

Microbial signature-triggered plant defense responses and early signaling mechanisms

(2014) Shujing Wu et al.   PLANT SCIENCE

sgRNAcas9: A Software Package for Designing CRISPR sgRNA and Evaluating Potential Off-Target Cleavage Sites

(2014) Shengsong Xie et al.   PLoS One

Targeted Genome Editing of Sweet Orange Using Cas9/sgRNA

(2014) Hongge Jia et al.   PLoS One

Structures of Cas9 Endonucleases Reveal RNA-Mediated Conformational Activation

(2014) M. Jinek et al.   SCIENCE

Unconventionally secreted effectors of two filamentous pathogens target plant salicylate biosynthesis

(2014) Tingli Liu et al.   Nature Communications

Specific Gene Repression by CRISPRi System Transferred through Bacterial Conjugation

(2014) Weiyue Ji et al.   ACS Synthetic Biology

Preparing to fight back: generation and storage of priming compounds

(2014) Victoria Pastor et al.   Frontiers in Plant Science

Enhancing crop resilience to combined abiotic and biotic stress through the dissection of physiological and molecular crosstalk

(2014) Christos Kissoudis et al.   Frontiers in Plant Science

Toward a systems understanding of plant–microbe interactions

(2014) Akira Mine et al.   Frontiers in Plant Science

CRISPR-Mediated Adaptive Immune Systems in Bacteria and Archaea

(2013) Rotem Sorek et al.   Annual Review of Biochemistry

Engineering Plant Disease Resistance Based on TAL Effectors

(2013) Sebastian Schornack et al.   Annual Review of Phytopathology

TALENoffer: genome-wide TALEN off-target prediction

(2013) Jan Grau et al.   BIOINFORMATICS

Mojo Hand, a TALEN design tool for genome editing applications

(2013) Kevin L Neff et al.   BMC BIOINFORMATICS

Genome analyses of the wheat yellow (stripe) rust pathogen Puccinia striiformis f. sp. tritici reveal polymorphic and haustorial expressed secreted proteins as candidate effectors

(2013) Dario Cantu et al.   BMC GENOMICS

Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression

(2013) Lei S. Qi et al.   CELL

Double Nicking by RNA-Guided CRISPR Cas9 for Enhanced Genome Editing Specificity

(2013) F. Ann Ran et al.   CELL

Multiplexed activation of endogenous genes by CRISPR-on, an RNA-guided transcriptional activator system

(2013) Albert W Cheng et al.   CELL RESEARCH

Efficient genome editing in plants using a CRISPR/Cas system

(2013) Zhengyan Feng et al.   CELL RESEARCH

Enhanced Efficiency of Human Pluripotent Stem Cell Genome Editing through Replacing TALENs with CRISPRs

(2013) Qiurong Ding et al.   Cell Stem Cell

Transcriptional profiling of Zea mays roots reveals roles for jasmonic acid and terpenoids in resistance against Phytophthora cinnamomi

(2013) Jane Alisa Allardyce et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Traditional and Modern Plant Breeding Methods with Examples in Rice (Oryza sativa L.)

(2013) Flavio Breseghello et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

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

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

Rice MtN3/Saliva/SWEET Family Genes and Their Homologs in Cellular Organisms

(2013) Meng Yuan et al.   Molecular Plant

Rapid and Efficient Gene Modification in Rice and Brachypodium Using TALENs

(2013) Qiwei Shan et al.   Molecular Plant

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

High-frequency off-target mutagenesis induced by CRISPR-Cas nucleases in human cells

(2013) Yanfang Fu et al.   NATURE BIOTECHNOLOGY

CRISPR interference (CRISPRi) for sequence-specific control of gene expression

(2013) Matthew H Larson et al.   Nature Protocols

Breaking the DNA-binding code ofRalstonia solanacearumTAL effectors provides new possibilities to generate plant resistance genes against bacterial wilt disease

(2013) Orlando de Lange et al.   NEW PHYTOLOGIST

E-TALEN: a web tool to design TALENs for genome engineering

(2013) Florian Heigwer et al.   NUCLEIC ACIDS RESEARCH

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

(2013) David Bikard et al.   NUCLEIC ACIDS RESEARCH

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

(2013) Wenzhi Jiang et al.   NUCLEIC ACIDS RESEARCH

Plant genome editing made easy: targeted mutagenesis in model and crop plants using the CRISPR/Cas system

(2013) Khaoula Belhaj et al.   Plant Methods

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

Genetic loss of susceptibility: a costly route to disease resistance?

(2013) R. Hückelhoven et al.   PLANT PATHOLOGY

Fitness costs and trade-offs of disease resistance and their consequences for breeding arable crops

(2013) J. K. M. Brown et al.   PLANT PATHOLOGY

Loss of Function in Mlo Orthologs Reduces Susceptibility of Pepper and Tomato to Powdery Mildew Disease Caused by Leveillula taurica

(2013) Zheng Zheng et al.   PLoS One

Genome-Scale CRISPR-Cas9 Knockout Screening in Human Cells

(2013) Ophir Shalem et al.   SCIENCE

Multiplex Genome Engineering Using CRISPR/Cas Systems

(2013) L. Cong et al.   SCIENCE

Targeted Mutagenesis of Arabidopsis thaliana Using Engineered TAL Effector Nucleases

(2013) Michelle Christian et al.   G3-Genes Genomes Genetics

Computational Predictions Provide Insights into the Biology of TAL Effector Target Sites

(2013) Jan Grau et al.   PLoS Computational Biology

Mutations in FLS2 Ser-938 Dissect Signaling Activation in FLS2-Mediated Arabidopsis Immunity

(2013) Yangrong Cao et al.   PLoS Pathogens

Predicting promoters targeted by TAL effectors in plant genomes: from dream to reality

(2013) Laurent D. Noël et al.   Frontiers in Plant Science

Primed plants do not forget

(2012) V. Pastor et al.   ENVIRONMENTAL AND EXPERIMENTAL BOTANY

Playing the End Game: DNA Double-Strand Break Repair Pathway Choice

(2012) J. Ross Chapman et al.   MOLECULAR CELL

FLASH assembly of TALENs for high-throughput genome editing

(2012) Deepak Reyon et al.   NATURE BIOTECHNOLOGY

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

(2012) Ting Li et al.   NATURE BIOTECHNOLOGY

A ligation-independent cloning technique for high-throughput assembly of transcription activator–like effector genes

(2012) Jonathan L Schmid-Burgk et al.   NATURE BIOTECHNOLOGY

Risky business

(2012)   Nature Chemical Biology

A transcription activator-like effector toolbox for genome engineering

(2012) Neville E Sanjana et al.   Nature Protocols

TALENs: a widely applicable technology for targeted genome editing

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

EENdb: a database and knowledge base of ZFNs and TALENs for endonuclease engineering

(2012) An Xiao et al.   NUCLEIC ACIDS RESEARCH

TAL Effector-Nucleotide Targeter (TALE-NT) 2.0: tools for TAL effector design and target prediction

(2012) Erin L. Doyle et al.   NUCLEIC ACIDS RESEARCH

Plant disease resistance genes: Current status and future directions

(2012) Mayank Anand Gururani et al.   PHYSIOLOGICAL AND MOLECULAR PLANT PATHOLOGY

Novel Plant Immune-Priming Compounds Identified via High-Throughput Chemical Screening Target Salicylic Acid Glucosyltransferases in Arabidopsis

(2012) Y. Noutoshi et al.   PLANT CELL

RNA-seq pinpoints a Xanthomonas TAL-effector activated resistance gene in a large-crop genome

(2012) T. Strauss 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

Plant–pathogen interactions: disease resistance in modern agriculture

(2012) Lesley A. Boyd et al.   TRENDS IN GENETICS

Sulfonamides identified as plant immune-priming compounds in high-throughput chemical screening increase disease resistance in Arabidopsis thaliana

(2012) Yoshiteru Noutoshi et al.   Frontiers in Plant Science

The potential of effector-target genes in breeding for plant innate immunity

(2012) Fleur Gawehns et al.   Microbial Biotechnology

Understanding and Exploiting Late Blight Resistance in the Age of Effectors

(2011) Vivianne G.A.A. Vleeshouwers et al.   Annual Review of Phytopathology

Durable broad-spectrum powdery mildew resistance in pea er1 plants is conferred by natural loss-of-function mutations in PsMLO1

(2011) MATT HUMPHRY et al.   MOLECULAR PLANT PATHOLOGY

NLR functions in plant and animal immune systems: so far and yet so close

(2011) Takaki Maekawa et al.   NATURE IMMUNOLOGY

Evolution and classification of the CRISPR–Cas systems

(2011) Kira S. Makarova et al.   NATURE REVIEWS MICROBIOLOGY

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

(2011) Tomas Cermak et al.   NUCLEIC ACIDS RESEARCH

Pea powdery mildew er1 resistance is associated to loss-of-function mutations at a MLO homologous locus

(2011) Stefano Pavan et al.   THEORETICAL AND APPLIED GENETICS

Molecular aspects of defence priming

(2011) Uwe Conrath   TRENDS IN PLANT SCIENCE

The Mechanism of Double-Strand DNA Break Repair by the Nonhomologous DNA End-Joining Pathway

(2010) Michael R. Lieber   Annual Review of Biochemistry

CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea

(2010) Luciano A. Marraffini et al.   NATURE REVIEWS GENETICS

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

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

Promoter elements of rice susceptibility genes are bound and activated by specific TAL effectors from the bacterial blight pathogen, Xanthomonas oryzae pv. oryzae

(2010) Patrick Römer et al.   NEW PHYTOLOGIST

CRISPR/Cas, the Immune System of Bacteria and Archaea

(2010) P. Horvath et al.   SCIENCE

Loss of susceptibility as a novel breeding strategy for durable and broad-spectrum resistance

(2009) Stefano Pavan et al.   MOLECULAR BREEDING

Roadmap for future research on plant pathogen effectors

(2009) JAMES R. ALFANO   MOLECULAR PLANT PATHOLOGY

Emerging Concepts in Effector Biology of Plant-Associated Organisms

(2009) Saskia A. Hogenhout et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Durability of plant major resistance genes to pathogens depends on the genetic background, experimental evidence and consequences for breeding strategies

(2009) A. Palloix et al.   NEW PHYTOLOGIST

Breaking the Code of DNA Binding Specificity of TAL-Type III Effectors

(2009) J. Boch et al.   SCIENCE

A Simple Cipher Governs DNA Recognition by TAL Effectors

(2009) M. J. Moscou et al.   SCIENCE

TURNER REVIEW No. 17.Phytophthora cinnamomiand Australia's biodiversity: impacts, predictions and progress towards control

(2008) David M. Cahill et al.   AUSTRALIAN JOURNAL OF BOTANY

What are the prospects for genetically engineered, disease resistant plants?

(2008) David B. Collinge et al.   EUROPEAN JOURNAL OF PLANT PATHOLOGY

Elucidation of defence responses and signalling pathways induced in Arabidopsis thaliana following challenge with Phytophthora cinnamomi

(2008) James E. Rookes et al.   PHYSIOLOGICAL AND MOLECULAR PLANT PATHOLOGY

The plant innate immunity response in stomatal guard cells invokes G-protein-dependent ion channel regulation

(2008) Wei Zhang et al.   PLANT JOURNAL

On-line resources for bacterial micro-evolution studies using MLVA or CRISPR typing

(2007) Ibtissem Grissa et al.   BIOCHIMIE