Complete Genome Sequence of Sporisorium scitamineum and Biotrophic Interaction Transcriptome with Sugarcane

The fungal core effector Pep1 is conserved across smuts of dicots and monocots

(2015) Christoph Hemetsberger et al.   NEW PHYTOLOGIST

Blue: correcting sequencing errors using consensus and context

(2014) Paul Greenfield et al.   BIOINFORMATICS

Genome sequencing of Sporisorium scitamineum provides insights into the pathogenic mechanisms of sugarcane smut

(2014) Youxiong Que et al.   BMC GENOMICS

Genome and secretome analysis of the hemibiotrophic fungal pathogen, Moniliophthora roreri, which causes frosty pod rot disease of cacao: mechanisms of the biotrophic and necrotrophic phases

(2014) Lyndel W Meinhardt et al.   BMC GENOMICS

Inside plant: biotrophic strategies to modulate host immunity and metabolism

(2014) Bilal Ökmen et al.   CURRENT OPINION IN PLANT BIOLOGY

Mobile elements and mitochondrial genome expansion in the soil fungus and potato pathogenRhizoctonia solaniAG-3

(2014) Liliana Losada et al.   FEMS MICROBIOLOGY LETTERS

Secretome analysis identifies potential virulence factors of Diplodia corticola, a fungal pathogen involved in cork oak (Quercus suber) decline

(2014) Isabel Fernandes et al.   Fungal Biology

Gene Loss Rather Than Gene Gain Is Associated with a Host Jump from Monocots to Dicots in the Smut Fungus Melanopsichium pennsylvanicum

(2014) Rahul Sharma et al.   Genome Biology and Evolution

Mitochondrial Genome of Phlebia radiata Is the Second Largest (156 kbp) among Fungi and Features Signs of Genome Flexibility and Recent Recombination Events

(2014) Heikki Salavirta et al.   PLoS One

A Global View of Transcriptome Dynamics during Sporisorium scitamineum Challenge in Sugarcane by RNA-seq

(2014) Youxiong Que et al.   PLoS One

Epigenetic Control of Effector Gene Expression in the Plant Pathogenic Fungus Leptosphaeria maculans

(2014) Jessica L. Soyer et al.   PLoS Genetics

Comparative Genomics of Plant Fungal Pathogens: The Ustilago-Sporisorium Paradigm

(2014) Theresa Wollenberg et al.   PLoS Pathogens

The biotechnological use and potential of plant pathogenic smut fungi

(2013) Michael Feldbrügge et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Comparative analysis of fungal genomes reveals different plant cell wall degrading capacity in fungi

(2013) Zhongtao Zhao et al.   BMC GENOMICS

Mitochondrial genome of the basidiomycetous yeast Jaminaea angkorensis

(2013) Eva Hegedusova et al.   CURRENT GENETICS

Transcriptome Profiling of Botrytis cinerea Conidial Germination Reveals Upregulation of Infection-Related Genes during the Prepenetration Stage

(2013) Michaela Leroch et al.   EUKARYOTIC CELL

Investigating the Ustilago maydis/Zea mays pathosystem: Transcriptional responses and novel functional aspects of a fungal calcineurin regulatory B subunit

(2013) Michael E. Donaldson et al.   FUNGAL GENETICS AND BIOLOGY

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Degradation of the plant defence hormone salicylic acid by the biotrophic fungusUstilago maydis

(2013) Franziska Rabe et al.   MOLECULAR MICROBIOLOGY

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

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

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Strategies for Wheat Stripe Rust Pathogenicity Identified by Transcriptome Sequencing

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

Fusion of a Novel Genetically Engineered Chitosan Affinity Protein and Green Fluorescent Protein for Specific Detection of ChitosanIn VitroandIn Situ

(2012) Malathi Nampally et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Transcriptome analysis of enriched Golovinomyces orontii haustoria by deep 454 pyrosequencing

(2012) Ralf Weßling et al.   FUNGAL GENETICS AND BIOLOGY

Lifestyle transitions in plant pathogenic Colletotrichum fungi deciphered by genome and transcriptome analyses

(2012) Richard J O'Connell et al.   NATURE GENETICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

dbCAN: a web resource for automated carbohydrate-active enzyme annotation

(2012) Yanbin Yin et al.   NUCLEIC ACIDS RESEARCH

Genome Comparison of Barley and Maize Smut Fungi Reveals Targeted Loss of RNA Silencing Components and Species-Specific Presence of Transposable Elements

(2012) J. D. Laurie et al.   PLANT CELL

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

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

Simultaneous RNA-Seq Analysis of a Mixed Transcriptome of Rice and Blast Fungus Interaction

(2012) Yoshihiro Kawahara et al.   PLoS One

Sugar transporters in plants and in their interactions with fungi

(2012) Joan Doidy et al.   TRENDS IN PLANT SCIENCE

Genome-wide Transcriptional Profiling of Appressorium Development by the Rice Blast Fungus Magnaporthe oryzae

(2012) Darren M. Soanes et al.   PLoS Pathogens

The Ustilago maydis Effector Pep1 Suppresses Plant Immunity by Inhibition of Host Peroxidase Activity

(2012) Christoph Hemetsberger et al.   PLoS Pathogens

Malassezia Fungi Are Specialized to Live on Skin and Associated with Dandruff, Eczema, and Other Skin Diseases

(2012) Charles W. Saunders et al.   PLoS Pathogens

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

(2011) Diego Darriba et al.   BIOINFORMATICS

VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R

(2011) Hanbo Chen et al.   BMC BIOINFORMATICS

The role of effectors of biotrophic and hemibiotrophic fungi in infection

(2011) Markus Koeck et al.   CELLULAR MICROBIOLOGY

Pathogenomics of fungal plant parasites: what have we learnt about pathogenesis?

(2011) Sarah Maria Schmidt et al.   CURRENT OPINION IN PLANT BIOLOGY

Differential Gene Expression in Sugarcane in Response to Challenge by Fungal PathogenUstilago scitamineaRevealed by cDNA-AFLP

(2011) Que You-Xiong et al.   JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY

Metabolic priming by a secreted fungal effector

(2011) Armin Djamei et al.   NATURE

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Interspecific Sex in Grass Smuts and the Genetic Diversity of Their Pheromone-Receptor System

(2011) Ronny Kellner et al.   PLoS Genetics

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Analyses of genome architecture and gene expression reveal novel candidate virulence factors in the secretome of Phytophthora infestans

(2010) Sylvain Raffaele et al.   BMC GENOMICS

From Saccharomyces cerevisiae to Candida glabrata in a few easy steps: important adaptations for an opportunistic pathogen

(2010) Andreas Roetzer et al.   FEMS MICROBIOLOGY LETTERS

MIPS: curated databases and comprehensive secondary data resources in 2010

(2010) H. Werner Mewes et al.   NUCLEIC ACIDS RESEARCH

Sugarcane for bioenergy production: an assessment of yield and regulation of sucrose content

(2010) Alessandro J. Waclawovsky et al.   PLANT BIOTECHNOLOGY JOURNAL

The Botrytis cinerea early secretome

(2010) José J. Espino et al.   PROTEOMICS

Pathogenicity Determinants in Smut Fungi Revealed by Genome Comparison

(2010) J. Schirawski et al.   SCIENCE

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

A Novel High-Affinity Sucrose Transporter Is Required for Virulence of the Plant Pathogen Ustilago maydis

(2010) Ramon Wahl et al.   PLOS BIOLOGY

Fungal Effector Proteins

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

Ligninolytic Fungal Laccases and Their Biotechnological Applications

(2009) Daljit Singh Arora et al.   APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Molecular Evolution of the mtDNA Encoded rps3 Gene Among Filamentous Ascomycetes Fungi with an Emphasis on the Ophiostomatoid Fungi

(2009) Jyothi Sethuraman et al.   JOURNAL OF MOLECULAR EVOLUTION

A novel allele ofHWP1, isolated from a clinical strain ofCandida albicanswith defective hyphal growth and biofilm formation, has deletions of Gln/Pro and Ser/Thr repeats involved in cellular adhesion

(2009) Ana Carolina B. Padovan et al.   MEDICAL MYCOLOGY

Microbial degradation of lignin: how a bulky recalcitrant polymer is efficiently recycled in nature and how we can take advantage of this

(2009) Francisco J. Ruiz-Dueñas et al.   Microbial Biotechnology

Pep1, a Secreted Effector Protein of Ustilago maydis, Is Required for Successful Invasion of Plant Cells

(2009) Gunther Doehlemann et al.   PLoS Pathogens

Evaluation of smut inoculation techniques in sugarcane seedlings

(2009) Olweny Co et al.   Sugar Tech

PredGPI: a GPI-anchor predictor

(2008) Andrea Pierleoni et al.   BMC BIOINFORMATICS

Sex in smut fungi: Structure, function and evolution of mating-type complexes

(2008) Guus Bakkeren et al.   FUNGAL GENETICS AND BIOLOGY

The secretome of the maize pathogen Ustilago maydis

(2008) Olaf Mueller et al.   FUNGAL GENETICS AND BIOLOGY

Characterization of Chromosome Ends in the Filamentous Fungus Neurospora crassa

(2008) C. Wu et al.   GENETICS

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

CYP53A15 of Cochliobolus lunatus, a Target for Natural Antifungal Compounds†

(2008) Barbara Podobnik et al.   JOURNAL OF MEDICINAL CHEMISTRY

Differential expression analysis by cDNA-AFLP of Saccharum spp. after inoculation with the host pathogen Sporisorium scitamineum

(2008) María LaO et al.   PLANT CELL REPORTS

Real-Time DNA Sequencing from Single Polymerase Molecules

(2008) J. Eid et al.   SCIENCE

Coding fungal tandem repeats as generators of fungal diversity

(2008) Emma Levdansky et al.   Fungal Biology Reviews