Probing the Phylogenomics and Putative Pathogenicity Genes of Pythium insidiosum by Oomycete Genome Analyses

Phylogenomic analysis supports multiple instances of polyphyly in the oomycete peronosporalean lineage

(2017) Marina S. Ascunce et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Comparing the Diagnostic Classification Accuracy of iTRAQ, Peak-Area, Spectral-Counting, and emPAI Methods for Relative Quantification in Expression Proteomics

(2016) Adam A. Dowle et al.   JOURNAL OF PROTEOME RESEARCH

Combat-Related Pythium aphanidermatum Invasive Wound Infection: Case Report and Discussion of Utility of Molecular Diagnostics

(2015) Aaron R. Farmer et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Phytopythium: molecular phylogeny and systematics

(2015) A.W.A.M. de Cock et al.   PERSOONIA

The Elicitin-Like Glycoprotein, ELI025, Is Secreted by the Pathogenic Oomycete Pythium insidiosum and Evades Host Antibody Responses

(2015) Tassanee Lerksuthirat et al.   PLoS One

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

Transcriptome analysis reveals pathogenicity and evolutionary history of the pathogenic oomycete Pythium insidiosum

(2014) Theerapong Krajaejun et al.   Fungal Biology

Expanded microbial genome coverage and improved protein family annotation in the COG database

(2014) Michael Y. Galperin et al.   NUCLEIC ACIDS RESEARCH

A phylogenomics approach for selecting robust sets of phylogenetic markers

(2014) Salvador Capella-Gutierrez et al.   NUCLEIC ACIDS RESEARCH

Microbial Urease in Health and Disease

(2014) Diego Mora et al.   PLoS Pathogens

The Emerging Role of Urease as a General Microbial Virulence Factor

(2014) Julian C. Rutherford   PLoS Pathogens

Lagenidium sp. Ocular Infection Mimicking Ocular Pythiosis

(2013) U. Reinprayoon et al.   JOURNAL OF CLINICAL MICROBIOLOGY

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

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

Comparative Genomics Reveals Insight into Virulence Strategies of Plant Pathogenic Oomycetes

(2013) Bishwo N. Adhikari et al.   PLoS One

Distinctive Expansion of Potential Virulence Genes in the Genome of the Oomycete Fish Pathogen Saprolegnia parasitica

(2013) Rays H. Y. Jiang et al.   PLoS Genetics

Mechanisms and Evolution of Virulence in Oomycetes

(2012) Rays H.Y. Jiang et al.   Annual Review of Phytopathology

Genome Sequencing and Mapping Reveal Loss of Heterozygosity as a Mechanism for Rapid Adaptation in the Vegetable Pathogen Phytophthora capsici

(2012) Kurt H. Lamour et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

A beginner's guide to eukaryotic genome annotation

(2012) Mark Yandell et al.   NATURE REVIEWS GENETICS

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

(2011) Carson Holt et al.   BMC BIOINFORMATICS

FungalRV: adhesin prediction and immunoinformatics portal for human fungal pathogens

(2011) Rupanjali Chaudhuri et al.   BMC GENOMICS

Pythium aphanidermatum Infection following Combat Trauma

(2011) T. P. Calvano et al.   JOURNAL OF CLINICAL MICROBIOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Identification of the Pangenome and Its Components in 14 Distinct Aggregatibacter actinomycetemcomitans Strains by Comparative Genomic Analysis

(2011) Weerayuth Kittichotirat et al.   PLoS One

PhylomeDB v3.0: an expanding repository of genome-wide collections of trees, alignments and phylogeny-based orthology and paralogy predictions

(2010) J. Huerta-Cepas et al.   NUCLEIC ACIDS RESEARCH

CDD: a Conserved Domain Database for the functional annotation of proteins

(2010) A. Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

Signatures of Adaptation to Obligate Biotrophy in the Hyaloperonospora arabidopsidis Genome

(2010) L. Baxter 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

Pythium insidiosum: An overview

(2010) Wim Gaastra et al.   VETERINARY MICROBIOLOGY

Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire

(2010) C André Lévesque et al.   GENOME BIOLOGY

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

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

(2009) Brian J. Haas et al.   NATURE

Kalign2: high-performance multiple alignment of protein and nucleotide sequences allowing external features

(2008) Timo Lassmann et al.   NUCLEIC ACIDS RESEARCH