Transcriptome Profiling of Huanglongbing (HLB) Tolerant and Susceptible Citrus Plants Reveals the Role of Basal Resistance in HLB Tolerance

Comparative Transcriptome and iTRAQ Proteome Analyses of Citrus Root Responses to Candidatus Liberibacter asiaticus Infection

(2015) Yun Zhong et al.   PLoS One

Transgenic Citrus Expressing an Arabidopsis NPR1 Gene Exhibit Enhanced Resistance against Huanglongbing (HLB; Citrus Greening)

(2015) Manjul Dutt et al.   PLoS One

Quantification of Major Flavonoids in Carnation Tissues (Dianthus caryophyllus) as a Tool for Cultivar Discrimination

(2015) Francesco Galeotti et al.   ZEITSCHRIFT FUR NATURFORSCHUNG SECTION C-A JOURNAL OF BIOSCIENCES

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

(2014) S. Anders et al.   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

IUTA: a tool for effectively detecting differential isoform usage from RNA-Seq data

(2014) Liang Niu et al.   BMC GENOMICS

Sequencing of diverse mandarin, pummelo and orange genomes reveals complex history of admixture during citrus domestication

(2014) G Albert Wu et al.   NATURE BIOTECHNOLOGY

DOWNY MILDEW RESISTANT 6 and DMR6-LIKE OXYGENASE 1 are partially redundant but distinct suppressors of immunity in Arabidopsis

(2014) Tieme Zeilmaker et al.   PLANT JOURNAL

The Phloem-Sap Feeding Mealybug (Ferrisia virgata) Carries ‘Candidatus Liberibacter asiaticus’ Populations That Do Not Cause Disease in Host Plants

(2014) Marco Pitino et al.   PLoS One

rMATS: Robust and flexible detection of differential alternative splicing from replicate RNA-Seq data

(2014) Shihao Shen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Candidatus Liberibacter americanus induces significant reprogramming of the transcriptome of the susceptible citrus genotype

(2013) Valéria Mafra et al.   BMC GENOMICS

Transcriptome comparison and gene coexpression network analysis provide a systems view of citrus response to ‘Candidatus Liberibacter asiaticus’ infection

(2013) Zhi-Liang Zheng et al.   BMC GENOMICS

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

Gene Regulatory Networks Elucidating Huanglongbing Disease Mechanisms

(2013) Federico Martinelli et al.   PLoS One

Transcriptional and Microscopic Analyses of Citrus Stem and Root Responses to Candidatus Liberibacter asiaticus Infection

(2013) Valente Aritua et al.   PLoS One

MYB transcription factor genes as regulators for plant responses: an overview

(2013) Supriya Ambawat et al.   PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Gene expression in Citrus sinensis fruit tissues harvested from huanglongbing-infected trees: comparison with girdled fruit

(2012) Hui-Ling Liao et al.   JOURNAL OF EXPERIMENTAL BOTANY

Arabidopsis RAP2.2 plays an important role in plant resistance to Botrytis cinerea and ethylene responses

(2012) Yang Zhao et al.   NEW PHYTOLOGIST

Brassinosteroids Antagonize Gibberellin- and Salicylate-Mediated Root Immunity in Rice

(2012) D. De Vleesschauwer et al.   PLANT PHYSIOLOGY

Transcriptome Profiling of Citrus Fruit Response to Huanglongbing Disease

(2012) Federico Martinelli et al.   PLoS One

Comparative iTRAQ proteome and transcriptome analyses of sweet orange infected by “Candidatus Liberibacter asiaticus”

(2011) Jing Fan et al.   PHYSIOLOGIA PLANTARUM

Insights into Auxin Signaling in Plant?Pathogen Interactions

(2011) Jing Fu et al.   Frontiers in Plant Science

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

Pseudomonas syringae hijacks plant stress chaperone machinery for virulence

(2010) J. Jelenska et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

SAUR39, a Small Auxin-Up RNA Gene, Acts as a Negative Regulator of Auxin Synthesis and Transport in Rice

(2009) S. Kant et al.   PLANT PHYSIOLOGY

In Planta Distribution of ‘CandidatusLiberibacter asiaticus’ as Revealed by Polymerase Chain Reaction (PCR) and Real-Time PCR

(2008) Satyanarayana Tatineni et al.   PHYTOPATHOLOGY

Response of Sweet Orange (Citrus sinensis) to ‘CandidatusLiberibacter asiaticus’ Infection: Microscopy and Microarray Analyses

(2008) Jeong-Soon Kim et al.   PHYTOPATHOLOGY

Activation of the Indole-3-Acetic Acid-Amido Synthetase GH3-8 Suppresses Expansin Expression and Promotes Salicylate- and Jasmonate-Independent Basal Immunity in Rice

(2008) X. Ding et al.   PLANT CELL

Arabidopsis DMR6 encodes a putative 2OG-Fe(II) oxygenase that is defense-associated but required for susceptibility to downy mildew

(2008) Mireille van Damme et al.   PLANT JOURNAL

An important role of a BAHD acyl transferase-like protein in plant innate immunity

(2008) Zuyu Zheng et al.   PLANT JOURNAL

Gene expression in Citrus sinensis (L.) Osbeck following infection with the bacterial pathogen Candidatus Liberibacter asiaticus causing Huanglongbing in Florida

(2008) Ute Albrecht et al.   PLANT SCIENCE