Signatures of host specialization and a recent transposable element burst in the dynamic one-speed genome of the fungal barley powdery mildew pathogen

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(2017) Shaun D. Jackman et al.   GENOME RESEARCH

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(2017) Sergey Koren et al.   GENOME RESEARCH

Molecular cloning, expression and insulin reduction activity of a thioredoxin 1 homologue (TRX1) from the pathogenic fungus Paracoccidioides lutzii

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A fungal wheat pathogen evolved host specialization by extensive chromosomal rearrangements

(2017) Fanny E Hartmann et al.   ISME Journal

mlo-Based Resistance: An Apparently Universal “Weapon” to Defeat Powdery Mildew Disease

(2017) Stefan Kusch et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

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(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

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(2017) Aurélie Kapusta et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolution of the wheat blast fungus through functional losses in a host specificity determinant

(2017) Yoshihiro Inoue et al.   SCIENCE

Thioredoxin A Is Essential for Motility and Contributes to Host Infection of Listeria monocytogenes via Redox Interactions

(2017) Changyong Cheng et al.   Frontiers in Cellular and Infection Microbiology

Purification of High Molecular Weight Genomic DNA from Powdery Mildew for Long-Read Sequencing

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Host specialization of the blast fungus Magnaporthe oryzae is associated with dynamic gain and loss of genes linked to transposable elements

(2016) Kentaro Yoshida et al.   BMC GENOMICS

Transposons passively and actively contribute to evolution of the two-speed genome of a fungal pathogen

(2016) Luigi Faino et al.   GENOME RESEARCH

Hybridization of powdery mildew strains gives rise to pathogens on novel agricultural crop species

(2016) Fabrizio Menardo et al.   NATURE GENETICS

AvrPm2 encodes an RNase-like avirulence effector which is conserved in the two different specialized forms of wheat and rye powdery mildew fungus

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Allelic barley MLA immune receptors recognize sequence-unrelated avirulence effectors of the powdery mildew pathogen

(2016) Xunli Lu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Terrace Aware Data Structure for Phylogenomic Inference from Supermatrices

(2016) Olga Chernomor et al.   SYSTEMATIC BIOLOGY

Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles

(2016) Raúl Castanera et al.   PLoS Genetics

Mildew-Omics: How Global Analyses Aid the Understanding of Life and Evolution of Powdery Mildews

(2016) Laurence V. Bindschedler 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

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(2015) James K.M. Brown   Annual Review of Phytopathology

Fungal Effectors and Plant Susceptibility

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BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

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Evolution of the EKA family of powdery mildew avirulence-effector genes from the ORF 1 of a LINE retrotransposon

(2015) Joelle Amselem et al.   BMC GENOMICS

The two-speed genomes of filamentous pathogens: waltz with plants

(2015) Suomeng Dong et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Deciphering Genome Content and Evolutionary Relationships of Isolates from the FungusMagnaporthe oryzaeAttacking Different Host Plants

(2015) Hélène Chiapello et al.   Genome Biology and Evolution

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(2014) Anthony M. Bolger et al.   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

BESST - Efficient scaffolding of large fragmented assemblies

(2014) Kristoffer Sahlin et al.   BMC BIOINFORMATICS

In silico analysis of the core signaling proteome from the barley powdery mildew pathogen (Blumeria graminis f.sp. hordei)

(2014) Stefan Kusch et al.   BMC GENOMICS

Adaptive genomic structural variation in the grape powdery mildew pathogen, Erysiphe necator

(2014) Laura Jones et al.   BMC GENOMICS

Transposable element-assisted evolution and adaptation to host plant within the Leptosphaeria maculans-Leptosphaeria biglobosa species complex of fungal pathogens

(2014) Jonathan Grandaubert et al.   BMC GENOMICS

The 203 kbp Mitochondrial Genome of the Phytopathogenic Fungus Sclerotinia borealis Reveals Multiple Invasions of Introns and Genomic Duplications

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Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

An Immunity-Triggering Effector from the Barley Smut Fungus Ustilago hordei Resides in an Ustilaginaceae-Specific Cluster Bearing Signs of Transposable Element-Assisted Evolution

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MCScanX-transposed: detecting transposed gene duplications based on multiple colinearity scans

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(2013) Y. Liao et al.   BIOINFORMATICS

Extensive chromosomal reshuffling drives evolution of virulence in an asexual pathogen

(2013) R. de Jonge et al.   GENOME RESEARCH

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

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

The wheat powdery mildew genome shows the unique evolution of an obligate biotroph

(2013) Thomas Wicker et al.   NATURE GENETICS

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

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

Mosaic genome structure of the barley powdery mildew pathogen and conservation of transcriptional programs in divergent hosts

(2013) S. Hacquard et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomic parasites or symbionts? Modeling the effects of environmental pressure on transposition activity in asexual populations

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Comparative Genomics of a Plant-Pathogenic Fungus, Pyrenophora tritici-repentis , Reveals Transduplication and the Impact of Repeat Elements on Pathogenicity and Population Divergence

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(2013) Daehwan Kim et al.   GENOME BIOLOGY

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Phylogeography and virulence structure of the powdery mildew population on its 'new' host triticale

(2012) Veronique Troch et al.   BMC EVOLUTIONARY BIOLOGY

Structure and evolution of barley powdery mildew effector candidates

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Genome evolution in filamentous plant pathogens: why bigger can be better

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Experimental Relocation of the Mitochondrial ATP9 Gene to the Nucleus Reveals Forces Underlying Mitochondrial Genome Evolution

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Two Nuclear Life Cycle-Regulated Genes Encode Interchangeable Subunits c of Mitochondrial ATP Synthase in Podospora anserina

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(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

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(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

SyMAP v3.4: a turnkey synteny system with application to plant genomes

(2011) Carol Soderlund et al.   NUCLEIC ACIDS RESEARCH

Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations

(2011) Thierry Rouxel et al.   Nature Communications

Comparative Genomics Yields Insights into Niche Adaptation of Plant Vascular Wilt Pathogens

(2011) Steven J. Klosterman et al.   PLoS Pathogens

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Comparative sequence analysis of wheat and barley powdery mildew fungi reveals gene colinearity, dates divergence and indicates host-pathogen co-evolution

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Jumping genes and epigenetics: Towards new species

(2010) Rita Rebollo et al.   GENE

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium

(2010) Li-Jun Ma et al.   NATURE

Genome Expansion and Gene Loss in Powdery Mildew Fungi Reveal Tradeoffs in Extreme Parasitism

(2010) P. D. Spanu et al.   SCIENCE

Fast and accurate short read alignment with Burrows-Wheeler transform

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Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans

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The Powdery Mildews: A Review of the World's Most Familiar (Yet Poorly Known) Plant Pathogens

(2008) Dean A. Glawe   Annual Review of Phytopathology

Arabidopsis non-host resistance to powdery mildews

(2008) Ulrike Lipka et al.   CURRENT OPINION IN PLANT BIOLOGY

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Real-Time DNA Sequencing from Single Polymerase Molecules

(2008) J. Eid et al.   SCIENCE