VMD is an integrated resource that includes community annotation features, toolkits, and resources to perform complex queries of biological information. The project's researchers created a browser, which makes it easy for users to view the genome sequence data and connect to detailed annotation pages for each sequence. The community annotation interface is available for registered members to add or edit annotations.
The database will be expanded in 2006 to include genome sequences for the fungal pathogen Alternaria brassicicola and the oomycete pathogen Hyaloperonospora parasitica, both of which can infect the model plant Arabidopsis. In addition, support for proteomic and micro-array data will be added, which will be linked to the functional genomic data and the genome sequences.
P. ramorum, also known as sudden oak death, is a serious oomycete pathogen that has attacked and killed tens of thousands of oak trees in California and Oregon; P. sojae, a sister pathogen of P. ramorum, causes serious damage to soybean crops. Brett Tyler, in conjunction with collaborators at the United States Department of Energy Joint Genome Institute, successfully completed the genome sequences of the pathogens in 2004.
The research paper has been published with the title: "VMD: a community annotation database for oomycetes and microbial genomes", Nucleic Acids Research, 2006, Vol. 34, D379-D381. The database can be accessed by visiting the Virginia Bioinformatics Institute's Web site.