SCRI,Invergowrie,Dundee DD2 5DA,Scotland,
United Kingdom
Mini-biographyDavid Marshall is the Head of the Bioinformatics group, Division of Genetics at SCRI. His major research interests are focused on the development and utilization of informatics tools and resources in the following areas: SSR and SNP-based molecular markers, comparative mapping and genome evolution, the definition and analysis of multigene families in barley and potatoes, the development of RDMS together with analysis and visualization tools for genotype analysis of germplasm collections and breeding lines, the development of a specialized database for TILLING analysis and mutant populations in barley, the development of databases for plant snoRNAs and the Arabidopsis nucleolar proteome, the development of image databases for confocal images of protein targeting studies in Arabidopsis and Nicotiana and high throughput wheat in situ data. He has notably contributed to the development of Germinate, a generic database schema for plant genetic resources and related information that could be useful to GL-TTP members.
GERMINATE, a database for plant germplasm collectionsDavid Marshall1, Jacek Grzebyta
2, Jennifer M. Lee
2,4, Jo Dicks
3, Robert Davey
3 Jitender Cheema
3, Michael Ambrose
3, T.H. Noel Ellis
3, Paul Shaw
2, Ifejinelo Onyiah
2, Daniel.Nwankwo
2, Robbie Waugh
2 and Andrew J. Flavell
21. Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, UK
2. Plant Research Unit, University of Dundee at SCRI, Invergowrie, Dundee DD2 5DA, UK
3. John Innes Centre, Colney Lane, Norwich, NR4 7UH, UK.
4. Current address, Evolution and Ecology, Storer Hall, University of California at Davis, One Shields Ave, Davis, CA 95616
David.Marshall@scri.ac.ukEfficient utilisation of plant genetic resources (gene banks) requires versatile, powerful databases for storing, accessing and combining a wide variety of data types from descriptive (morphology, geography) to molecular (DNA sequence, marker scores, map position etc). We have developed a functioning database (GERMINATE) for this purpose and seek funds to complete its development into an integrated resource for the World's plant genetic resource community. The GERMINATE database stores passport and multi-crop descriptor data for every popular molecular marker type. This year we are expanding the functionality of GERMINATE by greatly increasing the number and variety of linked bioinformatic tools, including the existing suites STRUCTURE (for deducing and visualising the population structure of germplasm), TASSEL (for tree drawing and linkage disequilibrium estimation) and DIVA-GIS (for visualising geographical data associated with accessions).
1. Lee et al. (2005) Plant Physiol. 139: 619-631
