List of works - Jeff H. Chang

Genome sequencing and analysis of the model grass Brachypodium distachyon

scientific article

Molecular Basis of Gene-for-Gene Specificity in Bacterial Speck Disease of Tomato

scientific article published in December 1996

Subterfuge and manipulation: type III effector proteins of phytopathogenic bacteria

scientific article

Dynamic evolution of pathogenicity revealed by sequencing and comparative genomics of 19 Pseudomonas syringae isolates

scientific article

Effector-triggered immunity blocks pathogen degradation of an immunity-associated vesicle traffic regulator in Arabidopsis

scientific article

Constitutively active Pto induces a Prf-dependent hypersensitive response in the absence of avrPto

scientific article published on June 1999

A high-throughput, near-saturating screen for type III effector genes from Pseudomonas syringae

scientific article

Bacteria establish an aqueous living space in plants crucial for virulence

scientific article

Environmental stresses modulate abundance and timing of alternatively spliced circadian transcripts in Arabidopsis

scientific article published on 8 January 2015

The plant actin cytoskeleton responds to signals from microbe-associated molecular patterns

scientific article

Crystal structures of the type III effector protein AvrPphF and its chaperone reveal residues required for plant pathogenesis

scientific article published on September 2004

GENE-counter: a computational pipeline for the analysis of RNA-Seq data for gene expression differences.

scientific article

Recombineering and stable integration of the Pseudomonas syringae pv. syringaeâ 61 hrp/hrc cluster into the genome of the soil bacterium Pseudomonas fluorescens Pf0-1

article

Knowing the dancer from the dance: R-gene products and their interactions with other proteins from host and pathogen.

scientific article

An improved, high-quality draft genome sequence of the Germination-Arrest Factor-producing Pseudomonas fluorescens WH6.

scientific article

Wake of the flood: ascribing functions to the wave of type III effector proteins of phytopathogenic bacteria

scientific article published on February 2004

The membrane-associated monooxygenase in the butane-oxidizing Gram-positive bacteriumNocardioidessp. strain CF8 is a novel member of the AMO/PMO family

scientific article published on 26 January 2011

An SSR-based genetic linkage map of the model grass Brachypodium distachyon

article

Nitrobacter winogradskyi transcriptomic response to low and high ammonium concentrations

scientific article published on 4 December 2014

Mutualistic co-evolution of type III effector genes in Sinorhizobium fredii and Bradyrhizobium japonicum

scientific article

The ABCs and 123s of bacterial secretion systems in plant pathogenesis

scientific article

The HopX (AvrPphE) Family of Pseudomonas syringae Type III Effectors Require a Catalytic Triad and a Novel N-Terminal Domain for Function

scientific article published on 01 April 2007

The NBP Negative Binomial Model for Assessing Differential Gene Expression from RNA-Seq

article

Interactions of Nitrosomonas europaea and Nitrobacter winogradskyi grown in co-culture

article

The Pseudomonas syringae Type III Effector HopG1 Induces Actin Remodeling to Promote Symptom Development and Susceptibility during Infection.

scientific article published on 23 May 2016

Analysis of genome sequences from plant pathogenic Rhodococcus reveals genetic novelties in virulence loci

scientific article

Evolutionary transitions between beneficial and phytopathogenic Rhodococcus challenge disease management.

scientific article published on 12 December 2017

RNA-Seq analysis of resistant and susceptible potato varieties during the early stages of potato virus Y infection

scientific article published on 20 June 2015

Plants expressing the Pto disease resistance gene confer resistance to recombinant PVX containing the avirulence gene AvrPto

scientific article published on January 1999

Use of whole genome sequences to develop a molecular phylogenetic framework for Rhodococcus fascians and the Rhodococcus genus

scientific article

Transcriptome analysis reveals a dynamic and differential transcriptional response to sulforaphane in normal and prostate cancer cells and suggests a role for Sp1 in chemoprevention

scientific article

Variable suites of non-effector genes are co-regulated in the type III secretion virulence regulon across the Pseudomonas syringae phylogeny

scientific article

Long noncoding RNAs and sulforaphane: a target for chemoprevention and suppression of prostate cancer.

scientific article published on 12 January 2017

Gall-ID: tools for genotyping gall-causing phytopathogenic bacteria

scientific article published on 19 July 2016

Strong population structure characterizes weediness gene evolution in the invasive grass species Brachypodium distachyon

scientific article published on 13 May 2009

Novel mechanism of metabolic co-regulation coordinates the biosynthesis of secondary metabolites in Pseudomonas protegens.

scientific article published on 6 March 2017

Phloroglucinol functions as an intracellular and intercellular chemical messenger influencing gene expression in Pseudomonas protegens

scientific article published on 3 September 2015

Length bias correction in gene ontology enrichment analysis using logistic regression

scientific article

Identifying stably expressed genes from multiple RNA-Seq data sets

scientific article (publication date: 2016)

Higher order asymptotics for negative binomial regression inferences from RNA-sequencing data

scientific article

Association mapping, transcriptomics, and transient expression identify candidate genes mediating plant-pathogen interactions in a tree

article published in the Proceedings of the National Academy of Sciences of the United States of America

RNA-Seq for Plant Pathogenic Bacteria

scientific article published on 13 October 2011

Alternative Splicing in the Obligate Biotrophic Oomycete Pathogen Pseudoperonospora cubensis

scientific article

Negative regulation of germination-arrest factor production in Pseudomonas fluorescens WH6 by a putative extracytoplasmic function sigma factor

article

Genome sequencing and comparative analysis of the carrot bacterial blight pathogen, Xanthomonas hortorum pv. carotae M081, for insights into pathogenicity and applications in molecular diagnostics

article

Correction: Evolutionary transitions between beneficial and phytopathogenic Rhodococcus challenge disease management

scientific article published on 13 March 2018

The Draft Genome Sequence of Nocardioides sp. Strain CF8 Reveals the Scope of Its Metabolic Capabilities

scientific article published on 05 July 2013

Genome Sequencing and Transposon Mutagenesis of Burkholderia seminalis TC3.4.2R3 Identify Genes Contributing to Suppression of Orchid Necrosis Caused by B. gladioli

scientific article

Genome variations between rhizosphere and bulk soil ecotypes of a Pseudomonas koreensis population

scientific article published on 26 September 2018

Plant-Pathogenic Agrobacterium tumefaciens Strains Have Diverse Type VI Effector-Immunity Pairs and Vary in In-Planta Competitiveness

scientific article published on 27 June 2019

List of works by Jeff H. Chang

Genome sequencing and analysis of the model grass Brachypodium distachyon

Molecular Basis of Gene-for-Gene Specificity in Bacterial Speck Disease of Tomato

Subterfuge and manipulation: type III effector proteins of phytopathogenic bacteria

Dynamic evolution of pathogenicity revealed by sequencing and comparative genomics of 19 Pseudomonas syringae isolates

Effector-triggered immunity blocks pathogen degradation of an immunity-associated vesicle traffic regulator in Arabidopsis

Constitutively active Pto induces a Prf-dependent hypersensitive response in the absence of avrPto

A high-throughput, near-saturating screen for type III effector genes from Pseudomonas syringae

Bacteria establish an aqueous living space in plants crucial for virulence

Environmental stresses modulate abundance and timing of alternatively spliced circadian transcripts in Arabidopsis

The plant actin cytoskeleton responds to signals from microbe-associated molecular patterns

Crystal structures of the type III effector protein AvrPphF and its chaperone reveal residues required for plant pathogenesis

GENE-counter: a computational pipeline for the analysis of RNA-Seq data for gene expression differences.

Recombineering and stable integration of the Pseudomonas syringae pv. syringaeâ 61 hrp/hrc cluster into the genome of the soil bacterium Pseudomonas fluorescens Pf0-1

Knowing the dancer from the dance: R-gene products and their interactions with other proteins from host and pathogen.

An improved, high-quality draft genome sequence of the Germination-Arrest Factor-producing Pseudomonas fluorescens WH6.

Wake of the flood: ascribing functions to the wave of type III effector proteins of phytopathogenic bacteria

The membrane-associated monooxygenase in the butane-oxidizing Gram-positive bacteriumNocardioidessp. strain CF8 is a novel member of the AMO/PMO family

An SSR-based genetic linkage map of the model grass Brachypodium distachyon

Nitrobacter winogradskyi transcriptomic response to low and high ammonium concentrations

Mutualistic co-evolution of type III effector genes in Sinorhizobium fredii and Bradyrhizobium japonicum

The ABCs and 123s of bacterial secretion systems in plant pathogenesis

The HopX (AvrPphE) Family of Pseudomonas syringae Type III Effectors Require a Catalytic Triad and a Novel N-Terminal Domain for Function

The NBP Negative Binomial Model for Assessing Differential Gene Expression from RNA-Seq

Interactions of Nitrosomonas europaea and Nitrobacter winogradskyi grown in co-culture

The Pseudomonas syringae Type III Effector HopG1 Induces Actin Remodeling to Promote Symptom Development and Susceptibility during Infection.

Analysis of genome sequences from plant pathogenic Rhodococcus reveals genetic novelties in virulence loci

Evolutionary transitions between beneficial and phytopathogenic Rhodococcus challenge disease management.

RNA-Seq analysis of resistant and susceptible potato varieties during the early stages of potato virus Y infection

Plants expressing the Pto disease resistance gene confer resistance to recombinant PVX containing the avirulence gene AvrPto

Use of whole genome sequences to develop a molecular phylogenetic framework for Rhodococcus fascians and the Rhodococcus genus

Transcriptome analysis reveals a dynamic and differential transcriptional response to sulforaphane in normal and prostate cancer cells and suggests a role for Sp1 in chemoprevention

Variable suites of non-effector genes are co-regulated in the type III secretion virulence regulon across the Pseudomonas syringae phylogeny

Long noncoding RNAs and sulforaphane: a target for chemoprevention and suppression of prostate cancer.

Gall-ID: tools for genotyping gall-causing phytopathogenic bacteria

Strong population structure characterizes weediness gene evolution in the invasive grass species Brachypodium distachyon

Novel mechanism of metabolic co-regulation coordinates the biosynthesis of secondary metabolites in Pseudomonas protegens.

Phloroglucinol functions as an intracellular and intercellular chemical messenger influencing gene expression in Pseudomonas protegens

Length bias correction in gene ontology enrichment analysis using logistic regression

Identifying stably expressed genes from multiple RNA-Seq data sets

Higher order asymptotics for negative binomial regression inferences from RNA-sequencing data

Association mapping, transcriptomics, and transient expression identify candidate genes mediating plant-pathogen interactions in a tree

RNA-Seq for Plant Pathogenic Bacteria

Alternative Splicing in the Obligate Biotrophic Oomycete Pathogen Pseudoperonospora cubensis

Negative regulation of germination-arrest factor production in Pseudomonas fluorescens WH6 by a putative extracytoplasmic function sigma factor

Genome sequencing and comparative analysis of the carrot bacterial blight pathogen, Xanthomonas hortorum pv. carotae M081, for insights into pathogenicity and applications in molecular diagnostics

Correction: Evolutionary transitions between beneficial and phytopathogenic Rhodococcus challenge disease management

The Draft Genome Sequence of Nocardioides sp. Strain CF8 Reveals the Scope of Its Metabolic Capabilities

Genome Sequencing and Transposon Mutagenesis of Burkholderia seminalis TC3.4.2R3 Identify Genes Contributing to Suppression of Orchid Necrosis Caused by B. gladioli

Genome variations between rhizosphere and bulk soil ecotypes of a Pseudomonas koreensis population

Plant-Pathogenic Agrobacterium tumefaciens Strains Have Diverse Type VI Effector-Immunity Pairs and Vary in In-Planta Competitiveness