Transcriptomic Analysis of Resistant and Susceptible Responses in a New Model Root-Knot Nematode Infection System Using Solanum torvum and Meloidogyne arenaria

A Pathogen-Responsive Gene Cluster for Highly Modified Fatty Acids in Tomato

(2020) Ju Eun Jeon et al.   CELL

Transcriptomic profiling of Solanum peruvianum LA3858 revealed a Mi-3-mediated hypersensitive response to Meloidogyne incognita

(2020) Chong Du et al.   BMC GENOMICS

Biofumigation: An alternative strategy for the control of plant parasitic nematodes

(2020) Rebecca Jean Barnes BRENNAN et al.   Journal of Integrative Agriculture

Molecular insights into the compatible and incompatible interactions between sugar beet and the beet cyst nematode

(2020) Razieh Ghaemi et al.   BMC PLANT BIOLOGY

From Old-Generation to Next-Generation Nematicides

(2020) Yuji Oka   Agronomy-Basel

Plant roots employ cell-layer-specific programs to respond to pathogenic and beneficial microbes

(2020) Christian Fröschel et al.   Cell Host & Microbe

Parasitism of Solanum torvum by Meloidogyne hapla populations from Japan

(2020) Gaku Murata et al.   JOURNAL OF PHYTOPATHOLOGY

The structural integrity of lignin is crucial for resistance against Striga hermonthica parasitism in rice

(2019) J. Musembi Mutuku et al.   PLANT PHYSIOLOGY

Single‐cell damage elicits regional, nematode‐restricting ethylene responses in roots

(2019) Peter Marhavý et al.   EMBO JOURNAL

Host suitability of Solanum torvum cultivars to Meloidogyne incognita and M. javanica and population dynamics

(2019) H. A. García‐Mendívil et al.   PLANT PATHOLOGY

An ERF2-like transcription factor regulates production of the defense sesquiterpene capsidiol upon Alternaria alternata infection

(2019) Na Song et al.   JOURNAL OF EXPERIMENTAL BOTANY

Root endodermal barrier system contributes to defence against plant‐parasitic cyst and root‐knot nematodes

(2019) Julia Holbein et al.   PLANT JOURNAL

Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype

(2019) Daehwan Kim et al.   NATURE BIOTECHNOLOGY

Solanum torvum does not select for virulence in Meloidogyne incognita after two consecutive eggplant crops but has a fitness cost

(2019) H. A. García‐Mendívil et al.   PLANT PATHOLOGY

Plant Immune Responses to Parasitic Nematodes

(2019) Kazuki Sato et al.   Frontiers in Plant Science

Plant Proteins and Processes Targeted by Parasitic Nematode Effectors

(2019) Joffrey Mejias et al.   Frontiers in Plant Science

Transcriptome profiling of resistance response to Meloidogyne chitwoodi introgressed from wild species Solanum bulbocastanum into cultivated potato

(2019) Sapinder Bali et al.   BMC GENOMICS

Cell Wall Modifications in Giant Cells Induced by the Plant Parasitic Nematode Meloidogyne incognita in Wild-Type (Col-0) and the fra2 Arabidopsis thaliana Katanin Mutant

(2019) Christianna Meidani et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Exogenous treatment with glutamate induces immune responses in Arabidopsis

(2019) Yukihisa Goto et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

The FATTY ACID DESATURASE2 family in tomato contributes to primary metabolism and stress responses

(2019) Min Woo Lee et al.   PLANT PHYSIOLOGY

A Phenotyping Method of Giant Cells from Root-Knot Nematode Feeding Sites by Confocal Microscopy Highlights a Role for CHITINASE-LIKE 1 in Arabidopsis

(2018) Javier Cabrera et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Mechanisms of resistance in the rice cultivar Manikpukha to the rice stem nematode Ditylenchus angustus

(2018) Shakhina Khanam et al.   MOLECULAR PLANT PATHOLOGY

Parallel adaptations and common host cell responses enabling feeding of obligate and facultative plant parasitic nematodes

(2018) Geert Smant et al.   PLANT JOURNAL

Jasmonic Acid-Dependent Defenses Play a Key Role in Defending Tomato Against Bemisia tabaci Nymphs, but Not Adults

(2018) Peng-Jun Zhang et al.   Frontiers in Plant Science

Changes in lignin biosynthesis and monomer composition in response to benzothiadiazole and root-knot nematode Meloidogyne incognita infection in tomato

(2018) Pasqua Veronico et al.   JOURNAL OF PLANT PHYSIOLOGY

Parasitic nematodes manipulate plant development to establish feeding sites

(2018) Shahid Siddique et al.   CURRENT OPINION IN MICROBIOLOGY

Host-specific signatures of the cell wall changes induced by the plant parasitic nematode, Meloidogyne incognita

(2018) Refik Bozbuga et al.   Scientific Reports

Differences in parasitism of Meloidogyne incognita and two genotypes of M. arenaria on Solanum torvum in Japan

(2017) Taketo Uehara et al.   JOURNAL OF PHYTOPATHOLOGY

Histopathology combined with transcriptome analyses reveals the mechanism of resistance to Meloidogyne incognita in Cucumis metuliferus

(2017) De-You Ye et al.   JOURNAL OF PLANT PHYSIOLOGY

Transcriptome analysis of root-knot nematode (Meloidogyne incognita )-infected tomato (Solanum lycopersicum ) roots reveals complex gene expression profiles and metabolic networks of both host and nematode during susceptible and resistance responses

(2017) Neha Shukla et al.   MOLECULAR PLANT PATHOLOGY

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

Comparative RNA-Seq Analysis Uncovers a Complex Regulatory Network for Soybean Cyst Nematode Resistance in Wild Soybean (Glycine soja)

(2017) Hengyou Zhang et al.   Scientific Reports

The Complex Cell Wall Composition of Syncytia Induced by Plant Parasitic Cyst Nematodes Reflects Both Function and Host Plant

(2017) Li Zhang et al.   Frontiers in Plant Science

Anatomical Alterations in Plant Tissues Induced by Plant-Parasitic Nematodes

(2017) Juan E. Palomares-Rius et al.   Frontiers in Plant Science

De novo transcriptome assembly for the spiny mouse (Acomys cahirinus)

(2017) Jared Mamrot et al.   Scientific Reports

Plant basal resistance to nematodes: an update

(2016) Julia Holbein et al.   JOURNAL OF EXPERIMENTAL BOTANY

Metabolic engineering of Escherichia coli for the production of cinnamaldehyde

(2016) Hyun Bae Bang et al.   Microbial Cell Factories

Identification of Nematicidal Constituents of Notopterygium incisum Rhizomes against Bursaphelenchus xylophilus and Meloidogyne incognita

(2016) Gai Liu et al.   MOLECULES

The endodermis as a checkpoint for nutrients

(2016) Marie Barberon   NEW PHYTOLOGIST

Silencing CHALCONE SYNTHASE in Maize Impedes the Incorporation of Tricin into Lignin and Increases Lignin Content

(2016) Nubia B. Eloy et al.   PLANT PHYSIOLOGY

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Meloidogyne javanica fatty acid- and retinol-binding protein (Mj-FAR-1) regulates expression of lipid-, cell wall-, stress- and phenylpropanoid-related genes during nematode infection of tomato

(2015) Ionit Iberkleid et al.   BMC GENOMICS

The arabidopsis information resource: Making and mining the “gold standard” annotated reference plant genome

(2015) Tanya Z. Berardini et al.   GENESIS

Oxidation of Monolignols by Members of the Berberine Bridge Enzyme Family Suggests a Role in Plant Cell Wall Metabolism

(2015) Bastian Daniel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Secondary cell walls: biosynthesis and manipulation

(2015) Manoj Kumar et al.   JOURNAL OF EXPERIMENTAL BOTANY

Characterization of the promoter and extended C-terminal domain of Arabidopsis WRKY33 and functional analysis of tomato WRKY33 homologues in plant stress responses

(2015) Jie Zhou et al.   JOURNAL OF EXPERIMENTAL BOTANY

Over-expression of SlWRKY39 leads to enhanced resistance to multiple stress factors in tomato

(2015) Xiao-chun Sun et al.   JOURNAL OF PLANT BIOLOGY

Thiamine-induced priming against root-knot nematode infection in rice involves lignification and hydrogen peroxide generation

(2015) Wen-Kun Huang et al.   MOLECULAR PLANT PATHOLOGY

Sclareol Induces Plant Resistance to Root-Knot Nematode Partially Through Ethylene-Dependent Enhancement of Lignin Accumulation

(2015) Taketo Fujimoto et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

β-Aminobutyric Acid–Induced Resistance Against Root-Knot Nematodes in Rice Is Based on Increased Basal Defense

(2015) Hongli Ji et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Diverse functions and reactions of class III peroxidases

(2015) Jun Shigeto et al.   NEW PHYTOLOGIST

Overexpression ofSpWRKY1promotes resistance toPhytophthora nicotianaeand tolerance to salt and drought stress in transgenic tobacco

(2015) Jing-bin Li et al.   PHYSIOLOGIA PLANTARUM

SpWRKY1 mediates resistance to Phytophthora infestans and tolerance to salt and drought stress by modulating reactive oxygen species homeostasis and expression of defense-related genes in tomato

(2015) Jing-bin Li et al.   PLANT CELL TISSUE AND ORGAN CULTURE

Producing the Ethylene Signal: Regulation and Diversification of Ethylene Biosynthetic Enzymes

(2015) Matthew A. Booker et al.   PLANT PHYSIOLOGY

Transcriptome Analysis of Resistant and Susceptible Alfalfa Cultivars Infected With Root-Knot Nematode Meloidogyne incognita

(2015) Olga A. Postnikova et al.   PLoS One

Conserved nematode signalling molecules elicit plant defenses and pathogen resistance

(2015) Patricia Manosalva et al.   Nature Communications

SOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads

(2014) Y. Xie et al.   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

Comparative transcriptome analysis of eggplant (Solanum melongena L.) and turkey berry (Solanum torvum Sw.): phylogenomics and disease resistance analysis

(2014) Xu Yang et al.   BMC GENOMICS

Suberin: biosynthesis, regulation, and polymer assembly of a protective extracellular barrier

(2014) Sollapura J. Vishwanath et al.   PLANT CELL REPORTS

De Novo Assembly and Characterization of the Transcriptome of the Parasitic Weed Dodder Identifies Genes Associated with Plant Parasitism

(2014) A. Ranjan et al.   PLANT PHYSIOLOGY

Beyond the Barrier: Communication in the Root through the Endodermis

(2014) N. E. Robbins et al.   PLANT PHYSIOLOGY

Tomato WRKY transcriptional factor SlDRW1 is required for disease resistance against Botrytis cinerea and tolerance to oxidative stress

(2014) Bo Liu et al.   PLANT SCIENCE

Combining Transcriptome Assemblies from Multiple De Novo Assemblers in the Allo-Tetraploid Plant Nicotiana benthamiana

(2014) Kenlee Nakasugi et al.   PLoS One

The role of the secondary cell wall in plant resistance to pathogens

(2014) Eva Miedes et al.   Frontiers in Plant Science

The plant cell wall in the feeding sites of cyst nematodes

(2014) Holger Bohlmann et al.   Frontiers in Plant Science

Solanum torvum responses to the root-knot nematode Meloidogyne incognita

(2013) Paolo Bagnaresi et al.   BMC GENOMICS

A large and functionally diverse family of Fad2 genes in safflower (Carthamus tinctorius L.)

(2013) Shijiang Cao et al.   BMC PLANT BIOLOGY

The Arabidopsis LRR-RLK, PXC1, is a regulator of secondary wall formation correlated with the TDIF-PXY/TDR-WOX4 signaling pathway

(2013) Jiehua Wang et al.   BMC PLANT BIOLOGY

Vascularization and nutrient delivery at root-knot nematode feeding sites in host roots

(2013) D. G. Bartlem et al.   JOURNAL OF EXPERIMENTAL BOTANY

Top 10 plant-parasitic nematodes in molecular plant pathology

(2013) John T. Jones et al.   MOLECULAR PLANT PATHOLOGY

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

Dynamic Transcriptomic Profiles between Tomato and a Wild Relative Reflect Distinct Developmental Architectures

(2013) D. H. Chitwood et al.   PLANT PHYSIOLOGY

The AAP gene family for amino acid permeases contributes to development of the cyst nematode Heterodera schachtii in roots of Arabidopsis

(2013) Abdelnaser Elashry et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

Fatty Acid-and Retinol-Binding Protein, Mj-FAR-1 Induces Tomato Host Susceptibility to Root-Knot Nematodes

(2013) Ionit Iberkleid et al.   PLoS One

Role of Tomato Lipoxygenase D in Wound-Induced Jasmonate Biosynthesis and Plant Immunity to Insect Herbivores

(2013) Liuhua Yan et al.   PLoS Genetics

Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels

(2012) Marcel H. Schulz et al.   BIOINFORMATICS

DNA binding specificity of ATAF2, a NAC domain transcription factor targeted for degradation by Tobacco mosaic virus

(2012) Xiao Wang et al.   BMC PLANT BIOLOGY

Genome-wide analysis of WRKY transcription factors in Solanum lycopersicum

(2012) Shengxiong Huang et al.   MOLECULAR GENETICS AND GENOMICS

Syncytia formed by adult female Heterodera schachtii in Arabidopsis thaliana roots have a distinct cell wall molecular architecture

(2012) Laura J. Davies et al.   NEW PHYTOLOGIST

Abscisic acid mediates the formation of a suberized stem scar tissue in tomato fruits

(2012) Jana Leide et al.   NEW PHYTOLOGIST

A Systems Biology View of Responses to Lignin Biosynthesis Perturbations in Arabidopsis

(2012) R. Vanholme et al.   PLANT CELL

A High-Throughput Method for Illumina RNA-Seq Library Preparation

(2012) Ravi Kumar et al.   Frontiers in Plant Science

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Chalcone synthase and its functions in plant resistance

(2011) T. T. H. Dao et al.   PHYTOCHEMISTRY REVIEWS

Cytokinins Mediate Resistance against Pseudomonas syringae in Tobacco through Increased Antimicrobial Phytoalexin Synthesis Independent of Salicylic Acid Signaling

(2011) D. K. Grosskinsky et al.   PLANT PHYSIOLOGY

The Ma Gene for Complete-Spectrum Resistance to Meloidogyne Species in Prunus Is a TNL with a Huge Repeated C-Terminal Post-LRR Region

(2011) M. Claverie et al.   PLANT PHYSIOLOGY

SlWRKY70 is required for Mi-1-mediated resistance to aphids and nematodes in tomato

(2011) Hagop S. Atamian et al.   PLANTA

The endodermis—development and differentiation of the plant’s inner skin

(2011) Julien Alassimone et al.   PROTOPLASMA

Managing Nematodes Without Methyl Bromide

(2010) Inga A. Zasada et al.   Annual Review of Phytopathology

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

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

Lignin Biosynthesis and Structure

(2010) R. Vanholme et al.   PLANT PHYSIOLOGY

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Gene expression analysis in cadmium-stressed roots of a low cadmium-accumulating solanaceous plant, Solanum torvum

(2009) Hirotaka Yamaguchi et al.   JOURNAL OF EXPERIMENTAL BOTANY

The role of xylem class III peroxidases in lignification

(2009) K. Marjamaa et al.   JOURNAL OF EXPERIMENTAL BOTANY

Ectopic Expression of an Esterase, Which is a Candidate for the Unidentified Plant Cutinase, Causes Cuticular Defects in Arabidopsis thaliana

(2009) Kentaro Takahashi et al.   PLANT AND CELL PHYSIOLOGY

Arabidopsis Spermidine Synthase Is Targeted by an Effector Protein of the Cyst Nematode Heterodera schachtii

(2009) T. Hewezi et al.   PLANT PHYSIOLOGY

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Regulatory involvement of abscisic acid in potato tuber wound-healing

(2008) Edward C. Lulai et al.   JOURNAL OF EXPERIMENTAL BOTANY

Specific functions of individual class III peroxidase genes

(2008) C. Cosio et al.   JOURNAL OF EXPERIMENTAL BOTANY

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH