A small secreted protein in Zymoseptoria tritici is responsible for avirulence on wheat cultivars carrying the Stb6 resistance gene

Quantitative trait locus mapping reveals complex genetic architecture of quantitative virulence in the wheat pathogen Zymoseptoria tritici

(2017) Ethan l. Stewart et al.   MOLECULAR PLANT PATHOLOGY

Comparative transcriptomic analyses ofZymoseptoria triticistrains show complex lifestyle transitions and intraspecific variability in transcription profiles

(2016) Javier Palma-Guerrero et al.   MOLECULAR PLANT PATHOLOGY

Genome-Wide Association Study Identifies Novel Candidate Genes for Aggressiveness, Deoxynivalenol Production, and Azole Sensitivity in Natural Field Populations of Fusarium graminearum

(2016) Firas Talas et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

The Evolution of Orphan Regions in Genomes of a Fungal Pathogen of Wheat

(2016) Clémence Plissonneau et al.   mBio

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

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

Combining powers of linkage and association mapping for precise dissection of QTL controlling resistance to gray leaf spot disease in maize (Zea mays L.)

(2015) Jafar Mammadov et al.   BMC GENOMICS

Is Zymoseptoria tritici a hemibiotroph?

(2015) Andrea Sánchez-Vallet et al.   FUNGAL GENETICS AND BIOLOGY

Genetics of resistance to Zymoseptoria tritici and applications to wheat breeding

(2015) James K.M. Brown et al.   FUNGAL GENETICS AND BIOLOGY

The Impact of Recombination Hotspots on Genome Evolution of a Fungal Plant Pathogen

(2015) D. Croll et al.   GENETICS

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

(2015) Jana Sperschneider et al.   NEW PHYTOLOGIST

The Pfam protein families database: towards a more sustainable future

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

Transcriptome and Metabolite Profiling of the Infection Cycle ofZymoseptoria triticion Wheat Reveals a Biphasic Interaction with Plant Immunity Involving Differential Pathogen Chromosomal Contributions and a Variation on the Hemibiotrophic Lifestyle Definition

(2015) Jason J. Rudd et al.   PLANT PHYSIOLOGY

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

(2014) S. Anders et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Expression Profiling of the Wheat Pathogen Zymoseptoria tritici Reveals Genomic Patterns of Transcription and Host-Specific Regulatory Programs

(2014) Ronny Kellner et al.   Genome Biology and Evolution

Measuring Quantitative Virulence in the Wheat Pathogen Zymoseptoria tritici Using High-Throughput Automated Image Analysis

(2014) Ethan L. Stewart et al.   PHYTOPATHOLOGY

Identification of loci governing eight agronomic traits using a GBS-GWAS approach and validation by QTL mapping in soya bean

(2014) Humira Sonah et al.   PLANT BIOTECHNOLOGY JOURNAL

TASSEL-GBS: A High Capacity Genotyping by Sequencing Analysis Pipeline

(2014) Jeffrey C. Glaubitz et al.   PLoS One

Effector-triggered defence against apoplastic fungal pathogens

(2014) Henrik U. Stotz et al.   TRENDS IN PLANT SCIENCE

The wheat–Septoria conflict: a new front opening up?

(2014) Aoife O’Driscoll et al.   TRENDS IN PLANT SCIENCE

Plant Nucleotide Binding Site–Leucine-Rich Repeat (NBS-LRR) Genes: Active Guardians in Host Defense Responses

(2013) Daniela Marone et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Mycosphaerella graminicolaLysM Effector-Mediated Stealth Pathogenesis Subverts Recognition Through Both CERK1 and CEBiP Homologues in Wheat

(2013) Wing-Sham Lee et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

(2013) Chen-Shan Chin et al.   NATURE METHODS

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(2013) Hamish McWilliam et al.   NUCLEIC ACIDS RESEARCH

A Genome-Wide Association Study Identifies Genomic Regions for Virulence in the Non-Model Organism Heterobasidion annosum s.s

(2013) Kerstin Dalman et al.   PLoS One

GWAS of 126,559 Individuals Identifies Genetic Variants Associated with Educational Attainment

(2013) C. A. Rietveld et al.   SCIENCE

Genome Wide Association Identifies Novel Loci Involved in Fungal Communication

(2013) Javier Palma-Guerrero et al.   PLoS Genetics

Stagonospora nodorum: From Pathology to Genomics and Host Resistance

(2012) Richard P. Oliver et al.   Annual Review of Phytopathology

A high-performance computing toolset for relatedness and principal component analysis of SNP data

(2012) X. Zheng et al.   BIOINFORMATICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The Cysteine Rich Necrotrophic Effector SnTox1 Produced by Stagonospora nodorum Triggers Susceptibility of Wheat Lines Harboring Snn1

(2012) Zhaohui Liu et al.   PLoS Pathogens

The role of effectors of biotrophic and hemibiotrophic fungi in infection

(2011) Markus Koeck et al.   CELLULAR MICROBIOLOGY

Genome-wide association analysis of clinical vs. nonclinical origin provides insights into Saccharomyces cerevisiae pathogenesis

(2011) L. A. H. MULLER et al.   MOLECULAR ECOLOGY

Of PAMPs and Effectors: The Blurred PTI-ETI Dichotomy

(2011) Bart P.H.J. Thomma et al.   PLANT CELL

Analysis of Two in Planta Expressed LysM Effector Homologs from the Fungus Mycosphaerella graminicola Reveals Novel Functional Properties and Varying Contributions to Virulence on Wheat

(2011) R. Marshall et al.   PLANT PHYSIOLOGY

Considering Transposable Element Diversification in De Novo Annotation Approaches

(2011) Timothée Flutre 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

New broad-spectrum resistance to septoria tritici blotch derived from synthetic hexaploid wheat

(2011) S. Mahmod Tabib Ghaffary et al.   THEORETICAL AND APPLIED GENETICS

Genetic analysis of resistance to septoria tritici blotch in the French winter wheat cultivars Balance and Apache

(2011) Seyed Mahmod Tabib Ghaffary et al.   THEORETICAL AND APPLIED GENETICS

Finished Genome of the Fungal Wheat Pathogen Mycosphaerella graminicola Reveals Dispensome Structure, Chromosome Plasticity, and Stealth Pathogenesis

(2011) Stephen B. Goodwin et al.   PLoS Genetics

genoPlotR: comparative gene and genome visualization in R

(2010) L. Guy et al.   BIOINFORMATICS

Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines

(2010) Susanna Atwell et al.   NATURE

Linkage and Association Mapping of Arabidopsis thaliana Flowering Time in Nature

(2010) Benjamin Brachi et al.   PLoS Genetics

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

Fungal Effector Proteins

(2009) Ioannis Stergiopoulos et al.   Annual Review of Phytopathology

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Goldacre paper: Recognition events and host–pathogen co-evolution in gene-for-gene resistance to flax rust

(2009) Peter Dodds et al.   FUNCTIONAL PLANT BIOLOGY

Fungal effector proteins: past, present and future

(2009) PIERRE J. G. M. DE WIT et al.   MOLECULAR PLANT PATHOLOGY

Potential etiologic and functional implications of genome-wide association loci for human diseases and traits

(2009) L. A. Hindorff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mouse Genome-Wide Association Mapping Needs Linkage Analysis to Avoid False-Positive Loci

(2009) Giacomo Manenti et al.   PLoS Genetics

Host-specific toxins: effectors of necrotrophic pathogenicity

(2008) Timothy L. Friesen et al.   CELLULAR MICROBIOLOGY

The Wheat Mitogen-Activated Protein Kinases TaMPK3 and TaMPK6 Are Differentially Regulated at Multiple Levels during Compatible Disease Interactions with Mycosphaerella graminicola

(2008) J. J. Rudd et al.   PLANT PHYSIOLOGY