Transcriptome analysis of Nicotiana benthamiana infected by Tobacco curly shoot virus

Identification of novel RNA viruses in alfalfa ( Medicago sativa ): an Alphapartitivirus , a Deltapartitivirus, and a Marafivirus

(2018) Hyein Kim et al.   GENE

Transcriptomics reveals multiple resistance mechanisms against cotton leaf curl disease in a naturally immune cotton species, Gossypium arboreum

(2017) Rubab Zahra Naqvi et al.   Scientific Reports

RNAseq analysis reveals pathways and candidate genes associated with salinity tolerance in a spaceflight-induced wheat mutant

(2017) Hongchun Xiong et al.   Scientific Reports

Comparative NGS Transcriptomics Unravels Molecular Components Associated with Mosaic Virus Infection in a Bioenergy Plant Species, Jatropha curcas L.

(2016) Archit Sood et al.   BioEnergy Research

Transcriptomic and proteomic analysis of yellow mosaic diseased soybean

(2016) Bapatla Kesava Pavan Kumar et al.   JOURNAL OF PLANT BIOCHEMISTRY AND BIOTECHNOLOGY

Role of brassinosteroid signaling in modulating Tobacco mosaic virus resistance in Nicotiana benthamiana

(2016) Xing-Guang Deng et al.   Scientific Reports

Chilli leaf curl virus infection highlights the differential expression of genes involved in protein homeostasis and defense in resistant chilli plants

(2015) Nirbhay Kushwaha et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Transcriptomic changes during maize roots development responsive to Cadmium (Cd) pollution using comparative RNAseq-based approach

(2015) Hua Peng et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

A geminivirus betasatellite damages the structural and functional integrity of chloroplasts leading to symptom formation and inhibition of photosynthesis

(2015) Dhriti Bhattacharyya et al.   JOURNAL OF EXPERIMENTAL BOTANY

Candidate Effector Proteins of the Rust Pathogen Melampsora larici-populina Target Diverse Plant Cell Compartments

(2015) Benjamin Petre et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Transcript Dynamics at Early Stages of Molecular Interactions of MYMIV with Resistant and Susceptible Genotypes of the Leguminous Host, Vigna mungo

(2015) Anirban Kundu et al.   PLoS One

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

RNA-Seq for gene identification and transcript profiling of three Stevia rebaudiana genotypes

(2014) Junwen Chen et al.   BMC GENOMICS

The brassinosteroid signaling network — a paradigm of signal integration

(2014) Wenfei Wang et al.   CURRENT OPINION IN PLANT BIOLOGY

Differential soybean gene expression during early phase of infection with Mungbean yellow mosaic India virus

(2014) Rajiv Kumar Yadav et al.   MOLECULAR BIOLOGY REPORTS

Connecting Growth and Defense: The Emerging Roles of Brassinosteroids and Gibberellins in Plant Innate Immunity

(2014) Lieselotte De Bruyne et al.   Molecular Plant

Roles of plant hormones in the regulation of host-virus interactions

(2014) Mazen Alazem et al.   MOLECULAR PLANT PATHOLOGY

The Photosystem II Oxygen-Evolving Complex Protein PsbP Interacts With the Coat Protein ofAlfalfa mosaic virusand Inhibits Virus Replication

(2014) Muthukumar Balasubramaniam et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Transcriptomics of the Interaction between the Monopartite Phloem-Limited Geminivirus Tomato Yellow Leaf Curl Sardinia Virus and Solanum lycopersicum Highlights a Role for Plant Hormones, Autophagy and Plant Immune System Fine Tuning during Infection

(2014) Laura Miozzi et al.   PLoS One

Making sense of hormone-mediated defense networking: from rice to Arabidopsis

(2014) David De Vleesschauwer et al.   Frontiers in Plant Science

Interaction between Rice stripe virus Disease-Specific Protein and Host PsbP Enhances Virus Symptoms

(2013) Lingfang Kong et al.   Molecular Plant

Quantitative transcriptional changes associated with chlorosis severity in mosaic leaves of tobacco plants infected withCucumber mosaic virus

(2013) Tomofumi Mochizuki et al.   MOLECULAR PLANT PATHOLOGY

Assessing Global Transcriptome Changes in Response to South African Cassava Mosaic Virus [ZA-99] Infection in Susceptible Arabidopsis thaliana

(2013) Erica J. Pierce et al.   PLoS One

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Comparative Analysis of Transcriptomic and Hormonal Responses to Compatible and Incompatible Plant-Virus Interactions that Lead to Cell Death

(2012) Remedios Pacheco et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

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

(2012) Cole Trapnell et al.   Nature Protocols

Influence of Host Chloroplast Proteins on Tobacco mosaic virus Accumulation and Intercellular Movement

(2012) S. Bhat et al.   PLANT PHYSIOLOGY

Brassinosteroid Signal Transduction: From Receptor Kinase Activation to Transcriptional Networks Regulating Plant Development

(2011) Steven D. Clouse   PLANT CELL

Characterization of Transcriptome Remodeling during Cambium Formation Identifies MOL1 and RUL1 As Opposing Regulators of Secondary Growth

(2011) Javier Agusti et al.   PLoS Genetics

Brassinosteroid Signal Transduction from Receptor Kinases to Transcription Factors

(2010) Tae-Wuk Kim et al.   Annual Review of Plant Biology

NSP-interacting kinase, NIK: a transducer of plant defence signalling

(2010) Anésia A. Santos et al.   JOURNAL OF EXPERIMENTAL BOTANY

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

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Gene ontology analysis for RNA-seq: accounting for selection bias

(2010) Matthew D Young et al.   GENOME BIOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Optimization of diagnostic RT-PCR protocols and sampling procedures for the reliable and cost-effective detection of Cassava brown streak virus

(2009) M.M. Abarshi et al.   JOURNAL OF VIROLOGICAL METHODS

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS