Insights into organ-specific pathogen defense responses in plants: RNA-seq analysis of potato tuber-Phytophthora infestans interactions

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

The Transcriptome of Compatible and Incompatible Interactions of Potato (Solanum tuberosum) with Phytophthora infestans Revealed by DeepSAGE Analysis

(2012) Gabor Gyetvai et al.   PLoS One

Physical Association ofArabidopsisHypersensitive Induced Reaction Proteins (HIRs) with the Immune Receptor RPS2

(2011) Yiping Qi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Methyl jasmonate-induced defense responses are associated with elevation of 1-aminocyclopropane-1-carboxylate oxidase in Lycopersicon esculentum fruit

(2011) Mengmeng Yu et al.   JOURNAL OF PLANT PHYSIOLOGY

Genome sequence and analysis of the tuber crop potato

(2011) Xun Xu et al.   NATURE

Plant latex and other exudates as plant defense systems: Roles of various defense chemicals and proteins contained therein

(2011) Kotaro Konno   PHYTOCHEMISTRY

Phosphorylation of the Nicotiana benthamiana WRKY8 Transcription Factor by MAPK Functions in the Defense Response

(2011) N. Ishihama et al.   PLANT CELL

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Phenotypic Characterization of Potato Late Blight Resistance Mediated by the Broad-Spectrum Resistance Gene RB

(2010) Yu Chen et al.   PHYTOPATHOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Phytophthora infestansIsolates Lacking Class IipiOVariants Are Virulent onRpi-blb1Potato

(2009) Nicolas Champouret et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Higher Copy Numbers of the Potato RB Transgene Correspond to Enhanced Transcript and Late Blight Resistance Levels

(2009) James M. Bradeen et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans

(2009) Brian J. Haas et al.   NATURE

Sequencing technologies — the next generation

(2009) Michael L. Metzker   NATURE REVIEWS GENETICS

Ethylene Modulates the Role of NONEXPRESSOR OF PATHOGENESIS-RELATED GENES1 in Cross Talk between Salicylate and Jasmonate Signaling

(2009) A. Leon-Reyes et al.   PLANT PHYSIOLOGY

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays

(2008) J. C. Marioni et al.   GENOME RESEARCH

Applications of next-generation sequencing technologies in functional genomics

(2008) Olena Morozova et al.   GENOMICS

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Effector Genomics Accelerates Discovery and Functional Profiling of Potato Disease Resistance and Phytophthora Infestans Avirulence Genes

(2008) Vivianne G. A. A. Vleeshouwers et al.   PLoS One