Secretome Characterization and Correlation Analysis Reveal Putative Pathogenicity Mechanisms and Identify Candidate Avirulence Genes in the Wheat Stripe Rust Fungus Puccinia striiformis f. sp. tritici

Inheritance of Virulence, Construction of a Linkage Map, and Mapping Dominant Virulence Genes in Puccinia striiformis f. sp. tritici Through Characterization of a Sexual Population with Genotyping-by-Sequencing

(2018) Congying Yuan et al.   PHYTOPATHOLOGY

Effectors from Wheat Rust Fungi Suppress Multiple Plant Defense Responses

(2017) Sowmya R. Ramachandran et al.   PHYTOPATHOLOGY

Virulence Characterization of Wheat Stripe Rust Fungus Puccinia striiformis f. sp. tritici in Ethiopia and Evaluation of Ethiopian Wheat Germplasm for Resistance to Races of the Pathogen from Ethiopia and the United States

(2017) Anmin Wan et al.   PLANT DISEASE

Changes of Races and Virulence Genes in Puccinia striiformis f. sp. tritici, the Wheat Stripe Rust Pathogen, in the United States from 1968 to 2009

(2017) Tinglan Liu et al.   PLANT DISEASE

Dissection of genomic features and variations of three pathotypes of Puccinia striiformis through whole genome sequencing

(2017) Kanti Kiran et al.   Scientific Reports

Role of Alternate Hosts in Epidemiology and Pathogen Variation of Cereal Rusts

(2016) Jie Zhao et al.   Annual Review of Phytopathology

Plant-Pathogen Effectors: Cellular Probes Interfering with Plant Defenses in Spatial and Temporal Manners

(2016) Tania Y. Toruño et al.   Annual Review of Phytopathology

Cladosporium fulvum Effectors: Weapons in the Arms Race with Tomato

(2016) Pierre J.G.M. de Wit   Annual Review of Phytopathology

Secreted protein gene derived-single nucleotide polymorphisms (SP-SNPs) reveal population diversity and differentiation of Puccinia striiformis f. sp. tritici in the United States

(2016) Chongjing Xia et al.   Fungal Biology

The stripe rust fungal effector PEC6 suppresses pattern-triggered immunity in a host species-independent manner and interacts with adenosine kinases

(2016) Changhai Liu et al.   NEW PHYTOLOGIST

Virulence and Simple Sequence Repeat Marker Segregation in aPuccinia striiformisf. sp.triticiPopulation Produced by Selfing a Chinese Isolate onBerberis shensiana

(2016) Yuan Tian et al.   PHYTOPATHOLOGY

Grass Hosts Harbor More Diverse Isolates of Puccinia striiformis Than Cereal Crops

(2016) P. Cheng et al.   PHYTOPATHOLOGY

Molecular Mapping of Stripe Rust Resistance Gene Yr76 in Winter Club Wheat Cultivar Tyee

(2016) C. Xiang et al.   PHYTOPATHOLOGY

Races of Puccinia striiformis f. sp. tritici in the United States in 2011 and 2012 and Comparison with Races in 2010

(2016) Anmin Wan et al.   PLANT DISEASE

Comparative Analysis Highlights Variable Genome Content of Wheat Rusts and Divergence of the Mating Loci

(2016) Christina A. Cuomo et al.   G3-Genes Genomes Genetics

Kingdom-Wide Analysis of Fungal Small Secreted Proteins (SSPs) Reveals their Potential Role in Host Association

(2016) Ki-Tae Kim et al.   Frontiers in Plant Science

Avirulence Genes in Cereal Powdery Mildews: The Gene-for-Gene Hypothesis 2.0

(2016) Salim Bourras et al.   Frontiers in Plant Science

Form and function of fungal and oomycete effectors

(2016) William C. Sharpee et al.   Fungal Biology Reviews

Qualimap 2: advanced multi-sample quality control for high-throughput sequencing data

(2015) Konstantin Okonechnikov et al.   BIOINFORMATICS

Identification of promising host-induced silencing targets among genes preferentially transcribed in haustoria of Puccinia

(2015) Chuntao Yin et al.   BMC GENOMICS

Characterization of protein kinasePsSRPKL, a novel pathogenicity factor in the wheat stripe rust fungus

(2015) Yulin Cheng et al.   ENVIRONMENTAL MICROBIOLOGY

Analysis of cytochrome b5 reductase-mediated metabolism in the phytopathogenic fungus Zymoseptoria tritici reveals novel functionalities implicated in virulence

(2015) Mark C. Derbyshire et al.   FUNGAL GENETICS AND BIOLOGY

Genome-Wide Analysis in Three Fusarium Pathogens Identifies Rapidly Evolving Chromosomes and Genes Associated with Pathogenicity

(2015) Jana Sperschneider et al.   Genome Biology and Evolution

Effector P: predicting fungal effector proteins from secretomes using machine learning

(2015) Jana Sperschneider et al.   NEW PHYTOLOGIST

HMMER web server: 2015 update

(2015) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

APhytophthora sojaeGlycoside Hydrolase 12 Protein Is a Major Virulence Factor during Soybean Infection and Is Recognized as a PAMP

(2015) Zhenchuan Ma et al.   PLANT CELL

Barberry as Alternate Host Is Important for Puccinia graminis f. sp. tritici But Not for Puccinia striiformis f. sp. tritici in the U.S. Pacific Northwest

(2015) M. N. Wang et al.   PLANT DISEASE

Replacement of the European wheat yellow rust population by new races from the centre of diversity in the near-Himalayan region

(2015) M. S. Hovmøller et al.   PLANT PATHOLOGY

Advances and Challenges in Computational Prediction of Effectors from Plant Pathogenic Fungi

(2015) Jana Sperschneider et al.   PLoS Pathogens

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Compositions of fungal secretomes indicate a greater impact of phylogenetic history than lifestyle adaptation

(2014) Jorrit-Jan Krijger et al.   BMC GENOMICS

UpSet: Visualization of Intersecting Sets

(2014) Alexander Lex et al.   IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS

Effectors as Tools in Disease Resistance Breeding Against Biotrophic, Hemibiotrophic, and Necrotrophic Plant Pathogens

(2014) Vivianne G. A. A. Vleeshouwers et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

LocTree3 prediction of localization

(2014) Tatyana Goldberg et al.   NUCLEIC ACIDS RESEARCH

The Pathogen-Host Interactions database (PHI-base): additions and future developments

(2014) Martin Urban et al.   NUCLEIC ACIDS RESEARCH

Virulence and Molecular Analyses Support Asexual Reproduction of Puccinia striiformis f. sp. tritici in the U.S. Pacific Northwest

(2014) P. Cheng et al.   PHYTOPATHOLOGY

Virulence Characterization of Puccinia striiformis f. sp. tritici Using a New Set of Yr Single-Gene Line Differentials in the United States in 2010

(2014) Anmin Wan et al.   PLANT DISEASE

Candida albicans SOD5 represents the prototype of an unprecedented class of Cu-only superoxide dismutases required for pathogen defense

(2014) J. E. Gleason et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Ins and Outs of Rust Haustoria

(2014) Diana P. Garnica et al.   PLoS Pathogens

Effector proteins of rust fungi

(2014) Benjamin Petre et al.   Frontiers in Plant Science

The genome sequence and effector complement of the flax rust pathogen Melampsora lini

(2014) Adnane Nemri et al.   Frontiers in Plant Science

Genome analyses of the wheat yellow (stripe) rust pathogen Puccinia striiformis f. sp. tritici reveal polymorphic and haustorial expressed secreted proteins as candidate effectors

(2013) Dario Cantu et al.   BMC GENOMICS

Potential oversummering and overwintering regions for the wheat stripe rust pathogen in the contiguous United States

(2013) Dipak Sharma-Poudyal et al.   INTERNATIONAL JOURNAL OF BIOMETEOROLOGY

Strategies for Wheat Stripe Rust Pathogenicity Identified by Transcriptome Sequencing

(2013) Diana P. Garnica et al.   PLoS One

High genome heterozygosity and endemic genetic recombination in the wheat stripe rust fungus

(2013) Wenming Zheng et al.   Nature Communications

Using Hierarchical Clustering of Secreted Protein Families to Classify and Rank Candidate Effectors of Rust Fungi

(2012) Diane G. O. Saunders et al.   PLoS One

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Indifferent, Affectionate, or Deceitful: Lifestyles and Secretomes of Fungi

(2012) Rohan G. T. Lowe et al.   PLoS Pathogens

Correcting errors in short reads by multiple alignments

(2011) L. Salmela et al.   BIOINFORMATICS

ProtTest 3: fast selection of best-fit models of protein evolution

(2011) Diego Darriba et al.   BIOINFORMATICS

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

FIMO: scanning for occurrences of a given motif

(2011) Charles E. Grant et al.   BIOINFORMATICS

Proteinortho: Detection of (Co-)orthologs in large-scale analysis

(2011) Marcus Lechner et al.   BMC BIOINFORMATICS

Global status of stripe rust: a review of historical and current threats

(2011) Colin R. Wellings   EUPHYTICA

Gene expression profiling of Puccinia striiformis f. sp. tritici during development reveals a highly dynamic transcriptome

(2011) Xueling Huang et al.   Journal of Genetics and Genomics

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

Virulence Dynamics and Regional Structuring of Puccinia striiformis f. sp. tritici in France Between 1984 and 2009

(2011) Claude de Vallavieille-Pope et al.   PLANT DISEASE

Virulence, Frequency, and Distribution of Races of Puccinia striiformis f. sp. tritici and P. striiformis f. sp. hordei Identified in the United States in 2008 and 2009

(2011) Anmin Wan et al.   PLANT DISEASE

The Pepper E3 Ubiquitin Ligase RING1 Gene, CaRING1, Is Required for Cell Death and the Salicylic Acid-Dependent Defense Response

(2011) D. H. Lee et al.   PLANT PHYSIOLOGY

Next Generation Sequencing Provides Rapid Access to the Genome of Puccinia striiformis f. sp. tritici, the Causal Agent of Wheat Stripe Rust

(2011) Dario Cantu et al.   PLoS One

Obligate biotrophy features unraveled by the genomic analysis of rust fungi

(2011) S. Duplessis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Powdery mildew fungal effector candidates share N-terminal Y/F/WxC-motif

(2010) Dale Godfrey et al.   BMC GENOMICS

Virulence races ofPuccinia striiformisf. sp.triticiin 2006 and 2007 and development of wheat stripe rust and distributions, dynamics, and evolutionary relationships of races from 2000 to 2007 in the United States

(2010) Xianming Chen et al.   CANADIAN JOURNAL OF PLANT PATHOLOGY

Prospects for functional analysis of effectors from cereal rust fungi

(2010) Chuntao Yin et al.   EUPHYTICA

FASconCAT: Convenient handling of data matrices

(2010) Patrick Kück et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

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

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Sho1 and Msb2-Related Proteins Regulate Appressorium Development in the Smut FungusUstilago maydis

(2010) Daniel Lanver et al.   PLANT CELL

NLStradamus: a simple Hidden Markov Model for nuclear localization signal prediction

(2009) Alex N Nguyen Ba et al.   BMC BIOINFORMATICS

Generation and analysis of expression sequence tags from haustoria of the wheat stripe rust fungus Puccinia striiformis f. sp. Tritici

(2009) Chuntao Yin et al.   BMC GENOMICS

A Novel Pathogenicity Gene Is Required in the Rice Blast Fungus to Suppress the Basal Defenses of the Host

(2009) Myoung-Hwan Chi et al.   PLoS Pathogens

Role of the Botrytis cinerea FKBP12 ortholog in pathogenic development and in sulfur regulation

(2008) Heber Gamboa Meléndez et al.   FUNGAL GENETICS AND BIOLOGY

Rapid global spread of two aggressive strains of a wheat rust fungus

(2008) MOGENS S. HOVMØLLER et al.   MOLECULAR ECOLOGY