PhytoPath

PhytoPath is a joint scientific project between the European Bioinformatics Institute and Rothamsted Research. The project aims to enable the exploitation of the growing body of “-omics” data being generated for phytopathogens, their plant hosts and related model species. Gene mutant phenotypic information is directly displayed in genome browsers.

Database
Content
DescriptionThe PhytoPath project collects and integrates genome-scale data from important fungal, oomycete and bacterial plant pathogens with literature-curated information on mutant phenotypes. Data are displayed using the Ensembl Genomes platform.
Data types
captured		Genome-scale data, phenotypes of microbial mutants
Organisms88 fungal, 24 bacterial and 23 protist pathogens
Contact
Research centerEMBL-EBI and Rothamsted Research
Primary citationPMID 26476449
Release date2012
Access
Data formatFASTA, GFF3
WebsitePhytoPath
Tools
WebPhytoPath BioMart search
Miscellaneous
LicenseApache 2.0 software license
VersioningYes
Data release
frequency		quarterly
VersionPhytoPath is built from 32nd release (Aug 2016) of Ensembl Genomes and version 4.2 of PHI-base

Background

PhytoPath is a bioinformatics resource launched in 2012, which integrates genome scale data from important plant pathogenic species with literature-curated information about the phenotypes of host infection available from the Pathogen-Host Interaction database (PHI-base). It provides access to complete genome assembly and gene models from priority crop and model phytopathogenic species of fungi and oomycetes through the Ensembl Genomes Browser interface. Phytopath also links directly from individual gene sequence models within the Ensembl genome browser to the peer reviewed phenotype information curated within PHI-base. The Phytopath resource aims to provide tools for comparative analysis of fungal and oomycete genomes. In 2015 the database makes accessible 135 genomic sequences in genome browsers from 87 plant pathogen species. For 1364 genes phenotypic annotation regarding their role in pathogenicity or as targets for chemical intervention is displayed directly in the pathogen genome browser. Support for community annotation for gene models is provided using the WebApollo online gene editor for some species.

gollark: https://www.raptorcs.com/TALOSII/
gollark: Maybe PowerPC or something is working nonhorribly. Who knows.
gollark: Within a few years our CPUs will be Pentiums in performance with a billion security mitigations running.
gollark: AAAAARGH EVERYTHING IS INSECURE AGAIN, though I suppose that was to be expected.
gollark: Go: Please Stop™

References
This article is issued from Wikipedia. The text is licensed under Creative Commons - Attribution - Sharealike. Additional terms may apply for the media files.