Population genomics of Fusarium graminearum reveals signatures of divergent evolution within a major cereal pathogen

Widespread selective sweeps throughout the genome of model plant pathogenic fungi and identification of effector candidates

(2017) H. Badouin et al.   MOLECULAR ECOLOGY

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

Genome-wide exonic small interference RNA-mediated gene silencing regulates sexual reproduction in the homothallic fungus Fusarium graminearum

(2017) Hokyoung Son et al.   PLoS Genetics

Transcriptome analysis of the fungal pathogen Fusarium oxysporum f. sp. medicaginis during colonisation of resistant and susceptible Medicago truncatula hosts identifies differential pathogenicity profiles and novel candidate effectors

(2016) Louise F. Thatcher et al.   BMC GENOMICS

The geographic distribution and complex evolutionary history of the NX-2 trichothecene chemotype from Fusarium graminearum

(2016) Amy Kelly et al.   FUNGAL GENETICS AND BIOLOGY

Continental-level population differentiation and environmental adaptation in the mushroom Suillus brevipes

(2016) Sara Branco et al.   MOLECULAR ECOLOGY

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

Rapid emergence of pathogens in agro-ecosystems: global threats to agricultural sustainability and food security

(2016) Bruce A. McDonald et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genome-Wide Analysis of Small Secreted Cysteine-Rich Proteins Identifies Candidate Effector Proteins Potentially Involved in Fusarium graminearum−Wheat Interactions

(2016) Shunwen Lu et al.   PHYTOPATHOLOGY

Molecular characterization of a novel mycovirus of the family Tymoviridae isolated from the plant pathogenic fungus Fusarium graminearum

(2016) Pengfei Li et al.   VIROLOGY

XGR software for enhanced interpretation of genomic summary data, illustrated by application to immunological traits

(2016) Hai Fang et al.   Genome Medicine

micropan: an R-package for microbial pan-genomics

(2015) Lars Snipen et al.   BMC BIOINFORMATICS

Genome-wide analysis of Fusarium graminearum field populations reveals hotspots of recombination

(2015) Firas Talas et al.   BMC GENOMICS

The completed genome sequence of the pathogenic ascomycete fungus Fusarium graminearum

(2015) Robert King et al.   BMC GENOMICS

New tricks of an old enemy: isolates ofFusarium graminearumproduce a type A trichothecene mycotoxin

(2015) Elisabeth Varga et al.   ENVIRONMENTAL MICROBIOLOGY

Diversity of Fusarium head blight populations and trichothecene toxin types reveals regional differences in pathogen composition and temporal dynamics

(2015) Amy C. Kelly et al.   FUNGAL GENETICS AND BIOLOGY

Identification of Allorecognition Loci inNeurospora crassaby Genomics and Evolutionary Approaches

(2015) Jiuhai Zhao et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genetic isolation between two recently diverged populations of a symbiotic fungus

(2015) Sara Branco et al.   MOLECULAR ECOLOGY

Intraspecies Interaction of Fusarium graminearum Contributes to Reduced Toxin Production and Virulence

(2015) Sean Walkowiak et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

An antibody that confers plant disease resistance targets a membrane-bound glyoxal oxidase inFusarium

(2015) Xiu-Shi Song et al.   NEW PHYTOLOGIST

Population Subdivision ofFusarium graminearumfrom Barley and Wheat in the Upper Midwestern United States at the Turn of the Century

(2015) Junmin Liang et al.   PHYTOPATHOLOGY

Functional characterization of salicylate hydroxylase from the fungal endophyte Epichloë festucae

(2015) Karen V. Ambrose et al.   Scientific Reports

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Global distribution of Fusarium graminearum, F. asiaticum and F. boothii from wheat in relation to climate

(2014) David Backhouse   EUROPEAN JOURNAL OF PLANT PATHOLOGY

Temporal dynamics and population genetic structure of Fusarium graminearum in the upper Midwestern United States

(2014) J.M. Liang et al.   FUNGAL GENETICS AND BIOLOGY

PopGenome: An Efficient Swiss Army Knife for Population Genomic Analyses in R

(2014) Bastian Pfeifer et al.   MOLECULAR BIOLOGY AND EVOLUTION

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Explaining microbial genomic diversity in light of evolutionary ecology

(2014) Otto X. Cordero et al.   NATURE REVIEWS MICROBIOLOGY

CDD: NCBI's conserved domain database

(2014) Aron Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

The Fusarium graminearum Genome Reveals More Secondary Metabolite Gene Clusters and Hints of Horizontal Gene Transfer

(2014) Christian M. K. Sieber et al.   PLoS One

Light-Dependent Functions of the Fusarium fujikuroi CryD DASH Cryptochrome in Development and Secondary Metabolism

(2013) Marta Castrillo et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phylogenetic analyses of RPB1 and RPB2 support a middle Cretaceous origin for a clade comprising all agriculturally and medically important fusaria

(2013) Kerry O’Donnell et al.   FUNGAL GENETICS AND BIOLOGY

RADseq underestimates diversity and introduces genealogical biases due to nonrandom haplotype sampling

(2013) B. Arnold et al.   MOLECULAR ECOLOGY

The Transcriptional Response to Nonself in the Fungus Podospora anserina

(2013) Frédérique Bidard et al.   G3-Genes Genomes Genetics

The Fusarium graminearum Histone H3 K27 Methyltransferase KMT6 Regulates Development and Expression of Secondary Metabolite Gene Clusters

(2013) Lanelle R. Connolly et al.   PLoS Genetics

Robust Demographic Inference from Genomic and SNP Data

(2013) Laurent Excoffier et al.   PLoS Genetics

Interactions of Fusarium species during prepenetration development

(2012) John Maina Wagacha et al.   Fungal Biology

In Silico Characterization and Molecular Evolutionary Analysis of a Novel Superfamily of Fungal Effector Proteins

(2012) Ioannis Stergiopoulos et al.   MOLECULAR BIOLOGY AND EVOLUTION

Greenhouse Studies Reveal Increased Aggressiveness of Emergent Canadian Fusarium graminearum Chemotypes in Wheat

(2012) N. A. Foroud et al.   PLANT DISEASE

A Unified Effort to Fight an Enemy of Wheat and Barley: Fusarium Head Blight

(2012) Marcia McMullen et al.   PLANT DISEASE

The Predicted Secretome of the Plant Pathogenic Fungus Fusarium graminearum: A Refined Comparative Analysis

(2012) Neil A. Brown et al.   PLoS One

High natural prevalence of a fungal prion

(2012) A. J. M. Debets et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Cryptochromes: Blue Light Photoreceptors in Plants and Animals

(2011) Inês Chaves et al.   Annual Review of Plant Biology

Genome sequencing reveals diversification of virulence factor content and possible host adaptation in distinct subpopulations of Salmonella enterica

(2011) Henk C den Bakker et al.   BMC GENOMICS

In vitro interactions between Fusarium verticillioides and Ustilago maydis through real-time PCR and metabolic profiling

(2011) Alma E. Rodriguez Estrada et al.   FUNGAL GENETICS AND BIOLOGY

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

(2011) Mark A DePristo et al.   NATURE GENETICS

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Trichothecene genotypes of Gibberella zeae from winter wheat fields in the eastern USA

(2011) D. G. Schmale et al.   PLANT PATHOLOGY

Population genomics and local adaptation in wild isolates of a model microbial eukaryote

(2011) C. E. Ellison et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

NMR solution structure of a cyanovirin homolog from wheat head blight fungus

(2011) Elena Matei et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

A Phenome-Based Functional Analysis of Transcription Factors in the Cereal Head Blight Fungus, Fusarium graminearum

(2011) Hokyoung Son et al.   PLoS Pathogens

Dynamic Evolution of Pathogenicity Revealed by Sequencing and Comparative Genomics of 19 Pseudomonas syringae Isolates

(2011) David A. Baltrus et al.   PLoS Pathogens

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

The diversity and evolution of circadian clock proteins in fungi

(2010) Leonidas Salichos et al.   MYCOLOGIA

Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium

(2010) Li-Jun Ma et al.   NATURE

FGDB: revisiting the genome annotation of the plant pathogen Fusarium graminearum

(2010) P. Wong et al.   NUCLEIC ACIDS RESEARCH

The 3ADON Population ofFusarium graminearumFound in North Dakota Is More Aggressive and Produces a Higher Level of DON than the Prevalent 15ADON Population in Spring Wheat

(2010) Krishna D. Puri et al.   PHYTOPATHOLOGY

Ecosystem-specific selection pressures revealed through comparative population genomics

(2010) M. L. Coleman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Population Genomics of Parallel Adaptation in Threespine Stickleback using Sequenced RAD Tags

(2010) Paul A. Hohenlohe et al.   PLoS Genetics

Salicylic Acid, a Multifaceted Hormone to Combat Disease

(2009) A. Corina Vlot et al.   Annual Review of Phytopathology

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

RNA binding proteins mediate the ability of a fungus to adapt to the cold

(2009) Weiguo Fang et al.   ENVIRONMENTAL MICROBIOLOGY

Constructing genomic maps of positive selection in humans: Where do we go from here?

(2009) J. M. Akey   GENOME RESEARCH

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Detecting loci under selection in a hierarchically structured population

(2009) L Excoffier et al.   HEREDITY

Divergent selection and heterogeneous genomic divergence

(2009) PATRIK NOSIL et al.   MOLECULAR ECOLOGY

Biosynthesis and Role in Virulence of the Histone Deacetylase Inhibitor Depudecin fromAlternaria brassicicola

(2009) Wanessa D. Wight et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Genes, gene clusters, and biosynthesis of trichothecenes and fumonisins inFusarium

(2009) Nancy J. Alexander et al.   Toxin Reviews

Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data

(2009) Ryan N. Gutenkunst et al.   PLoS Genetics

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH

An adaptive evolutionary shift in Fusarium head blight pathogen populations is driving the rapid spread of more toxigenic Fusarium graminearum in North America

(2007) Todd J. Ward et al.   FUNGAL GENETICS AND BIOLOGY

Adaptation from standing genetic variation

(2007) R BARRETT et al.   TRENDS IN ECOLOGY & EVOLUTION