Evolution within the fungal genus Verticillium is characterized by chromosomal rearrangement and gene loss

Reconstructing the Evolutionary History of Powdery Mildew Lineages (Blumeria graminis) at Different Evolutionary Time Scales with NGS Data

(2017) Fabrizio Menardo et al.   Genome Biology and Evolution

Interspecific hybridization impacts host range and pathogenicity of filamentous microbes

(2016) Jasper RL Depotter et al.   CURRENT OPINION IN MICROBIOLOGY

Mind the gap; seven reasons to close fragmented genome assemblies

(2016) Bart P.H.J. Thomma et al.   FUNGAL GENETICS AND BIOLOGY

Reconstruction of ancestral chromosome architecture and gene repertoire reveals principles of genome evolution in a model yeast genus

(2016) Nikolaos Vakirlis et al.   GENOME RESEARCH

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

(2016) Luigi Faino et al.   GENOME RESEARCH

Evolution by gene loss

(2016) Ricard Albalat et al.   NATURE REVIEWS GENETICS

Complete mitochondrial genome of the Verticillium-wilt causing plant pathogen Verticillium nonalfalfae

(2016) Vid Jelen et al.   PLoS One

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

(2016) Clémence Plissonneau et al.   mBio

GRAbB: Selective Assembly of Genomic Regions, a New Niche for Genomic Research

(2016) Balázs Brankovics et al.   PLoS Computational Biology

Genomics Spurs Rapid Advances in Our Understanding of the Biology of Vascular Wilt Pathogens in the Genus Verticillium

(2015) Anna Klimes et al.   Annual Review of Phytopathology

Understanding Plant Immunity as a Surveillance System to Detect Invasion

(2015) David E. Cook et al.   Annual Review of Phytopathology

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

(2015) Felipe A. Simão et al.   BIOINFORMATICS

The Genome of the Saprophytic Fungus Verticillium tricorpus Reveals a Complex Effector Repertoire Resembling That of Its Pathogenic Relatives

(2015) Michael F. Seidl et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

(2015) Jaime Huerta-Cepas et al.   NUCLEIC ACIDS RESEARCH

Host Range of Verticillium isaacii and Verticillium klebahnii from Artichoke, Spinach, and Lettuce

(2015) Suraj Gurung et al.   PLANT DISEASE

Single-Molecule Real-Time Sequencing Combined with Optical Mapping Yields Completely Finished Fungal Genome

(2015) Luigi Faino et al.   mBio

Sex or no sex: Evolutionary adaptation occurs regardless

(2014) Michael F. Seidl et al.   BIOESSAYS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

SynChro: A Fast and Easy Tool to Reconstruct and Visualize Synteny Blocks along Eukaryotic Chromosomes

(2014) Guénola Drillon et al.   PLoS One

The life cycle of Drosophila orphan genes

(2014) Nicola Palmieri et al.   eLife

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Extensive chromosomal reshuffling drives evolution of virulence in an asexual pathogen

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

Estimating Gene Gain and Loss Rates in the Presence of Error in Genome Assembly and Annotation Using CAFE 3

(2013) Mira V. Han et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomic evidence for ameiotic evolution in the bdelloid rotifer Adineta vaga

(2013) Jean-François Flot et al.   NATURE

An Integrated Pipeline for de Novo Assembly of Microbial Genomes

(2012) Andrew Tritt et al.   PLoS One

Tomato immune receptor Ve1 recognizes effector of multiple fungal pathogens uncovered by genome and RNA sequencing

(2012) R. de Jonge et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

Constraints on genes shape long-term conservation of macro-synteny in metazoan genomes

(2011) Jie Lv et al.   BMC BIOINFORMATICS

MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects

(2011) Carson Holt et al.   BMC BIOINFORMATICS

How filamentous pathogens co-opt plants: the ins and outs of fungal effectors

(2011) Ronnie de Jonge et al.   CURRENT OPINION IN PLANT BIOLOGY

The Ascomycete Verticillium longisporum Is a Hybrid and a Plant Pathogen with an Expanded Host Range

(2011) Patrik Inderbitzin et al.   PLoS One

Phylogenetics and Taxonomy of the Fungal Vascular Wilt Pathogen Verticillium, with the Descriptions of Five New Species

(2011) Patrik Inderbitzin 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

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

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

A novel mode of chromosomal evolution peculiar to filamentous Ascomycete fungi

(2011) James K Hane et al.   GENOME BIOLOGY

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

(2010) P. D. Spanu et al.   SCIENCE

More than just orphans: are taxonomically-restricted genes important in evolution?

(2009) Konstantin Khalturin et al.   TRENDS IN GENETICS

Additions, Losses, and Rearrangements on the Evolutionary Route from a Reconstructed Ancestor to the Modern Saccharomyces cerevisiae Genome

(2009) Jonathan L. Gordon et al.   PLoS Genetics

Evolution of Intracellular Pathogens

(2008) Arturo Casadevall   Annual Review of Microbiology

The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis

(2008) F. Martin et al.   NATURE

A Novel Gene Family Controls Species-Specific Morphological Traits in Hydra

(2008) Konstantin Khalturin et al.   PLOS BIOLOGY