Phytophthora ramorum
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Status

The current draft release, version 1.0 of the P. ramorum genome, was generated using the whole genome shotgun strategy. This release includes a total of 16,066 gene models, produced through the JGI annotation pipeline which combines several gene prediction methods with available EST/cDNA data. Conservation between the genomic sequences of P. sojae and P. ramorum provided additional support for the predicted gene models. This preliminary set of gene models will be refined through further analysis and manual curation.

 
Release
This assembly of whole genome shotgun reads was constructed with the JGI assembler, Jazz, using paired end sequencing reads at a coverage of 7X. After trimming for vector and quality, over 1 Million reads assembled into 2576 scaffolds totaling 66.6 Mbp. Roughly half of the genome is contained in 63 scaffolds all at least 308 Kb in length. The estimated genome size is 65 Mbp.
 
Collaborator

Brett Tyler
Virginia Bioinformatics Institute
Virginia Polytechnic and State University
1880 Pratt Dr., Bldg. XV
Blacksburg, VA 24061-0447
Tel. (540) 231-7318
Fax: (540) 231-2606

 
Funding

This project is the result of coordinated funding from three different agencies. A grant of $2,350,000 was made by the joint Microbial Program of the National Science Foundation and the US Department of Agriculture. An in-kind contribution of a similar amount was made by the US Department of Energy. NSF is also providing funds for follow-on functional genomics studies and for a Research Coordination Network.