title: PhytoPath: an integrative resource for plant pathogen genomics.
abstract: PhytoPath (www.phytopathdb.org) is a resource for genomic and phenotypic data from plant pathogen species, that integrates phenotypic data for genes from PHI-base, an expertly curated catalog of genes with experimentally verified pathogenicity, with the Ensembl tools for data visualization and analysis. The resource is focused on fungi, protists (oomycetes) and bacterial plant pathogens that have genomes that have been sequenced and annotated. Genes with associated PHI-base data can be easily identified across all plant pathogen species using a BioMart-based query tool and visualized in their genomic context on the Ensembl genome browser. The PhytoPath resource contains data for 135 genomic sequences from 87 plant pathogen species, and 1364 genes curated for their role in pathogenicity and as targets for chemical intervention. Support for community annotation of gene models is provided using the WebApollo online gene editor, and we are working with interested communities to improve reference annotation for selected species.
authors.affiliation: The European Molecular Biology Laboratory, The European Bioinformatics Institute, Hinxton, Cambridgeshire, CB10 1SD, UK.
authors.forename: Helder
authors.identifier: http://orcid.org/0000-0001-7582-1565
authors.initials: H
authors.lastname: Pedro
authors.affiliation: The European Molecular Biology Laboratory, The European Bioinformatics Institute, Hinxton, Cambridgeshire, CB10 1SD, UK.
authors.forename: Uma
authors.initials: U
authors.lastname: Maheswari
authors.affiliation: Department of Plant Biology and Crop Science, Rothamsted Research, Harpenden, Herts, AL5 2JQ, UK.
authors.forename: Martin
authors.identifier: http://orcid.org/0000-0001-7007-9234
authors.initials: M
authors.lastname: Urban
authors.affiliation: Department of Computational and Systems Biology, Rothamsted Research, Harpenden, Herts, AL5 2JQ, UK.
authors.forename: Alistair George
authors.initials: AG
authors.lastname: Irvine
authors.affiliation: Department of Plant Biology and Crop Science, Rothamsted Research, Harpenden, Herts, AL5 2JQ, UK.
authors.forename: Alayne
authors.initials: A
authors.lastname: Cuzick
authors.affiliation: The European Molecular Biology Laboratory, The European Bioinformatics Institute, Hinxton, Cambridgeshire, CB10 1SD, UK.
authors.forename: Mark D
authors.initials: MD
authors.lastname: McDowall
authors.affiliation: The European Molecular Biology Laboratory, The European Bioinformatics Institute, Hinxton, Cambridgeshire, CB10 1SD, UK.
authors.forename: Daniel M
authors.initials: DM
authors.lastname: Staines
authors.affiliation: The European Molecular Biology Laboratory, The European Bioinformatics Institute, Hinxton, Cambridgeshire, CB10 1SD, UK.
authors.forename: Eugene
authors.initials: E
authors.lastname: Kulesha
authors.affiliation: Department of Plant Biology and Crop Science, Rothamsted Research, Harpenden, Herts, AL5 2JQ, UK.
authors.forename: Kim Elizabeth
authors.initials: KE
authors.lastname: Hammond-Kosack
authors.affiliation: The European Molecular Biology Laboratory, The European Bioinformatics Institute, Hinxton, Cambridgeshire, CB10 1SD, UK pkersey@ebi.ac.uk.
authors.forename: Paul Julian
authors.identifier: http://orcid.org/0000-0002-7054-800X
authors.initials: PJ
authors.lastname: Kersey
mesh_terms: D030541:Databases, Genetic; D005798:Genes, Bacterial; D005800:Genes, Fungal; D016680:Genome, Bacterial; D016681:Genome, Fungal; D023281:Genomics; D054884:Host-Pathogen Interactions / Q000235:genetics*; D009868:Oomycetes / Q000235:genetics; D010641:Phenotype; D010935:Plant Diseases / Q000382:microbiology*; D016415:Sequence Alignment