PhytoPath was a joint scientific project between the
European Bioinformatics Institute
The European Bioinformatics Institute (EMBL-EBI) is an Intergovernmental Organization (IGO) which, as part of the European Molecular Biology Laboratory (EMBL) family, focuses on research and services in bioinformatics. It is located on the Well ...
and
Rothamsted Research, running from January 2012
to May 30, 2017.
The project aimed 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.
Background
PhytoPath was a bioinformatics resource launched in 2012,
which integrated 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 aimed to provide tools for comparative analysis of fungal and oomycete genomes. Since the final update - in May 2017 - the database makes accessible 275 genomic sequences in genome browsers from 113 fungal, 25 protist, and 137 bacterial species. Support for community annotation for gene models was provided using the WebApollo online gene editor for some species.
References
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{{reflist, refs=
[{{cite journal , last1=Pedro , first1=Helder , last2=Maheswari , first2=Uma , last3=Urban , first3=Martin , last4=Irvine , first4=Alistair George , last5=Cuzick , first5=Alayne , last6=McDowall , first6=Mark D. , last7=Staines , first7=Daniel M. , last8=Kulesha , first8=Eugene , last9=Hammond-Kosack , first9=Kim Elizabeth , last10=Kersey , first10=Paul Julian , title=PhytoPath: an integrative resource for plant pathogen genomics , journal= Nucleic Acids Research , publisher=]Oxford University Press
Oxford University Press (OUP) is the university press of the University of Oxford. It is the largest university press in the world, and its printing history dates back to the 1480s. Having been officially granted the legal right to print books ...
(OUP) , volume=44 , issue=D1 , date=2015-10-17 , issn=0305-1048 , doi=10.1093/nar/gkv1052 , pages=D688–D693 , pmid=26476449 , pmc=4702788
[{{cite web , title=PhytoPath, an infrastructure for hundreds of plant pathogen genomes , website= Rothamsted Research , date=2014-05-31 , url=http://repository.rothamsted.ac.uk/project/80w1q/phytopath-an-infrastructure-for-hundreds-of-plant-pathogen-genomes-2014-2017 , access-date=2021-03-19]
External links
PhytoPathPathogen-Host Interaction databaseEnsembl
Biological databases
Genetic engineering in the United Kingdom
Rothamsted Experimental Station
Science and technology in Cambridgeshire
Science and technology in Hertfordshire
South Cambridgeshire District
Wellcome Trust