De Novo Assembled Wheat Transcriptomes Delineate Differentially Expressed Host Genes in Response to Leaf Rust Infection

Chloroplasts play a central role in plant defence and are targeted by pathogen effectors

(2015) Marta de Torres Zabala et al.   Nature Plants

Transcriptomic and Proteomic Analyses of Resistant Host Responses in Arachis diogoi Challenged with Late Leaf Spot Pathogen, Phaeoisariopsis personata

(2015) Dilip Kumar et al.   PLoS One

A pipeline for the de novo assembly of the Themira biloba (Sepsidae: Diptera) transcriptome using a multiple k-mer length approach

(2014) Dacotah Melicher et al.   BMC GENOMICS

Stage-specific reprogramming of gene expression characterizes Lr48-mediated adult plant leaf rust resistance in wheat

(2014) Raman Dhariwal et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Functional characterisation of a WRKY transcription factor of wheat and its expression analysis during leaf rust pathogenesis

(2014) Dhananjay Kumar et al.   FUNCTIONAL PLANT BIOLOGY

Transcriptome-wide analysis of WRKY transcription factors in wheat and their leaf rust responsive expression profiling

(2014) Lopamudra Satapathy et al.   MOLECULAR GENETICS AND GENOMICS

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

(2014) Kenlee Nakasugi et al.   PLoS One

A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome

(2014) et al.   SCIENCE

The radical induced cell death protein 1 (RCD1) supports transcriptional activation of genes for chloroplast antioxidant enzymes

(2014) Heiko Hiltscher et al.   Frontiers in Plant Science

De novo transcriptome sequencing and comparative analysis of differentially expressed genes in Gossypium aridum under salt stress

(2013) Peng Xu et al.   GENE

Aegilops tauschii draft genome sequence reveals a gene repertoire for wheat adaptation

(2013) Jizeng Jia et al.   NATURE

PlantTFDB 3.0: a portal for the functional and evolutionary study of plant transcription factors

(2013) Jinpu Jin et al.   NUCLEIC ACIDS RESEARCH

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Elevated Early Callose Deposition Results in Complete Penetration Resistance to Powdery Mildew in Arabidopsis

(2013) D. Ellinger et al.   PLANT PHYSIOLOGY

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

(2012) Marcel H. Schulz et al.   BIOINFORMATICS

Optimization of de novo transcriptome assembly from high-throughput short read sequencing data improves functional annotation for non-model organisms

(2012) Berat Z Haznedaroglu et al.   BMC BIOINFORMATICS

Optimizing de novo common wheat transcriptome assembly using short-read RNA-Seq data

(2012) Jialei Duan et al.   BMC GENOMICS

Transcriptome-scale homoeolog-specific transcript assemblies of bread wheat

(2012) Andreas W Schreiber et al.   BMC GENOMICS

Combining SNP discovery from next-generation sequencing data with bulked segregant analysis (BSA) to fine-map genes in polyploid wheat

(2012) Martin Trick et al.   BMC PLANT BIOLOGY

Comprehensive Functional Analyses of Expressed Sequence Tags in Common Wheat (Triticum aestivum)

(2012) A. Manickavelu et al.   DNA RESEARCH

Photosynthesis, photorespiration, and light signalling in defence responses

(2012) S. Kangasjarvi et al.   JOURNAL OF EXPERIMENTAL BOTANY

Targeted spatio-temporal expression based characterization of state of infection and time-point of maximum defense in wheat NILs during leaf rust infection

(2012) Dharmendra Singh et al.   MOLECULAR BIOLOGY REPORTS

The Top 10 fungal pathogens in molecular plant pathology

(2012) RALPH DEAN et al.   MOLECULAR PLANT PATHOLOGY

Analysis of the bread wheat genome using whole-genome shotgun sequencing

(2012) Rachel Brenchley et al.   NATURE

De novo assembled expressed gene catalog of a fast-growing Eucalyptus tree produced by Illumina mRNA-Seq

(2011) Eshchar Mizrachi et al.   BMC GENOMICS

Effect of the down-regulation of the high Grain Protein Content (GPC) genes on the wheat transcriptome during monocarpic senescence

(2011) Dario Cantu et al.   BMC GENOMICS

De novo sequencing and characterization of floral transcriptome in two species of buckwheat (Fagopyrum)

(2011) Maria D Logacheva et al.   BMC GENOMICS

De Novo Assembly of Chickpea Transcriptome Using Short Reads for Gene Discovery and Marker Identification

(2011) R. Garg et al.   DNA RESEARCH

Lignin metabolism has a central role in the resistance of cotton to the wilt fungus Verticillium dahliae as revealed by RNA-Seq-dependent transcriptional analysis and histochemistry

(2011) Li Xu et al.   JOURNAL OF EXPERIMENTAL BOTANY

Dynamic intracellular reorganization of cytoskeletons and the vacuole in defense responses and hypersensitive cell death in plants

(2011) Takumi Higaki et al.   JOURNAL OF PLANT RESEARCH

Activation and Function of the MAPKs and Their Substrates, the MAPK-Activated Protein Kinases

(2011) M. Cargnello et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

HMMER web server: interactive sequence similarity searching

(2011) R. D. Finn et al.   NUCLEIC ACIDS RESEARCH

Frequent Gene Movement and Pseudogene Evolution Is Common to the Large and Complex Genomes of Wheat, Barley, and Their Relatives

(2011) Thomas Wicker et al.   PLANT CELL

Coordinated Gene Networks RegulatingArabidopsisPlant Metabolism in Response to Various Stresses and Nutritional Cues

(2011) Hadar Less et al.   PLANT CELL

RNA-Seq analysis and de novo transcriptome assembly of Hevea brasiliensis

(2011) Zhihui Xia et al.   PLANT MOLECULAR BIOLOGY

Cell Walls of Developing Wheat Starchy Endosperm: Comparison of Composition and RNA-Seq Transcriptome

(2011) T. K. Pellny et al.   PLANT PHYSIOLOGY

Transcriptome Analysis of H2O2-Treated Wheat Seedlings Reveals a H2O2-Responsive Fatty Acid Desaturase Gene Participating in Powdery Mildew Resistance

(2011) Aili Li et al.   PLoS One

Extracellular leucine-rich repeats as a platform for receptor/coreceptor complex formation

(2011) Y. Jaillais et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA-seq in grain unveils fate of neo- and paleopolyploidization events in bread wheat (Triticum aestivum L.)

(2011) Caroline Pont et al.   GENOME BIOLOGY

Genome-wide cloning and sequence analysis of leucine-rich repeat receptor-like protein kinase genes in Arabidopsis thaliana

(2010) Xiaoping Gou et al.   BMC GENOMICS

Inheritance of leaf rust resistance in wheat lines carryingAegilops speltoides Tausch. translocation in Chinese Spring background

(2010) Urmil K. Bansal et al.   JOURNAL OF APPLIED GENETICS

Sugar transporters for intercellular exchange and nutrition of pathogens

(2010) Li-Qing Chen et al.   NATURE

Manipulating Broad-Spectrum Disease Resistance by Suppressing Pathogen-Induced Auxin Accumulation in Rice

(2010) J. Fu et al.   PLANT PHYSIOLOGY

Identification and validation of reference genes for quantitative RT-PCR normalization in wheat

(2009) Anna R Paolacci et al.   BMC MOLECULAR BIOLOGY

Rapid development of PCR-based genome-specific repetitive DNA junction markers in wheat

(2009) Humphrey Wanjugi et al.   GENOME

ABySS: A parallel assembler for short read sequence data

(2009) J. T. Simpson et al.   GENOME RESEARCH

TheArabidopsisATAF1, a NAC Transcription Factor, Is a Negative Regulator of Defense Responses Against Necrotrophic Fungal and Bacterial Pathogens

(2009) Xiao'e Wang et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

PRGdb: a bioinformatics platform for plant resistance gene analysis

(2009) Walter Sanseverino et al.   NUCLEIC ACIDS RESEARCH

Real-Time Quantitative RT-PCR: Design, Calculations, and Statistics

(2009) I. Rieu et al.   PLANT CELL

SOAP: short oligonucleotide alignment program

(2008) R. Li et al.   BIOINFORMATICS

RUPTURED POLLEN GRAIN1, a Member of the MtN3/saliva Gene Family, Is Crucial for Exine Pattern Formation and Cell Integrity of Microspores in Arabidopsis

(2008) Y.-F. Guan et al.   PLANT PHYSIOLOGY

Shades of gray: the world of quantitative disease resistance

(2008) Jesse A. Poland et al.   TRENDS IN PLANT SCIENCE