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PHI-base is a web-accessible database that catalogues experimentally verified pathogenicity, virulence and effector genes from fungal, Oomycete and bacterial pathogens, which infect animal, plant, fungal and insect hosts. PHI-base is therefore an invaluable resource in the discovery of genes in medically and agronomically important pathogens, which may be potential targets for chemical intervention. In collaboration with the FRAC team, PHI-base also includes antifungal compounds and their target genes.

Each entry in PHI-base is curated by domain experts and is supported by strong experimental evidence (for example, gene disruption and gene complementation experiments), as well as literature references in which the original experiments are described. Each gene in PHI-base is presented with its nucleotide and deduced amino acid sequence, as well as a detailed description of the predicted protein's function during the host infection process. To facilitate data interoperability, we have annotated genes using controlled vocabularies and links to external sources (Uniprot, Gene Ontology terms, EC Numbers, NCBI taxonomy, EMBL, PubMed and FRAC).



General Plant Pathology

General Plant Pathology
de Bary, H. A. 1879. The Phenomenon of Symbiosis. Strasbourg.
Sequenced Fungal and Oomycete Genomes

Cantu D, Segovia V, MacLean D et al (2013). Genome analyses of the wheat yellow (stripe) rust pathogen Puccinia striiformis f. sp. tritici ........
Reviews on Pathogenicity

Ma LJ, Geiser DM, Proctor RH et al (2013). Fusarium pathogenomics Annu Rev Microbiol. doi: 10.1146/annurev-micro-092412-155650


Torto-Alalibo, T., Collmer, C. W. and Gwinn-Giglio, M., 2009. The Plant-Associated Microbe Gene Ontology (PAMGO) Consortium: community development of new Gene Ontology terms describing biological processes involved in microbe-host interactions. BMC Microbiology 9 (Suppl I): SI. Review.

Gene-Ontology-Consortium., 2006. The Gene Ontology (GO) project in 2006. Nucl. Acids Res. 34:D322-D326.

PAMGO - Plant-Associated Microbe Gene Ontology (2005)
A collaborative effort has establishment of 585 terms in the GO Biological Process ontology. Four hundred and seventy two (472) of these terms, are incorporated into the Biological Process ontology and describe more specific processes involved in the interaction between microbes and their hosts.

Featured below are some high order terms developed by PAMGO, which can be accessed from the Gene Ontology browser (AMIGO: http://amigo.geneontology.org/amigo).

Version: 4.17 release - Last revision: 01/05/2024

PHI-base is funded by the Biotechnology and Biological Sciences Research Council (BBSRC, UK) and is being developed and maintained by scientists at Rothamsted Research.
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