PAG-VI: UKCROPNET: GETTING TO GRIPS WITH PLANT GENOME DATA

PAG-VI  Plant & Animal Genome VI Conference

Town & Country Hotel, San Diego, CA, January 18-22, 1998.

C3

UKCROPNET: GETTING TO GRIPS WITH PLANT GENOME DATA.

MARY ANDERSON1, Jo Dicks3, Mike Gale3, Sam Cartinhour2, Cathy Howarth5, David Marshall4, Robbie Waugh4, Martin Trick3, Linda Cardle4, Matt Couchman3, Jeremy Dickson5, Mazda Hewitt3, Andy O'Malia3, Sean Walsh1

  1. NASC, Dept of Life Science, University of Nottingham, Nottingham, NG7 2RD, UK
  2. Crop Biotechnology Center, Texas A&M, College Station, Texas 77843, USA
  3. John Innes Centre, Colney Lane, Norwich, NR4 7UH, UK
  4. Scottish Research Institute (SCRI), Invergowerie, Dundee, UK
  5. Institute for Grassland and Environmental Research, (IGER), Plas Gogerddan, Aberystwyth, Dyfed, SY23 3EB, UK

UK CropNet is a collaborative project with a current membership of six groups making major contributions to plant genome analysis. The network was borne out of a need to harness the extensive work in genome mapping and sequencing, in order to facilitate the identification and manipulation of agronomically important genes and to lay a foundation for comparative analysis among crop plants and model species. In the last year progress has been made in the incorporation of new datasets and development of the ACEDB software used by each of the participating databases, the Arabidopsis Genome Resource, BrassicaDB, BarleyDB, FOGGDB (forage grasses) and MilletGenes. In particular, developments have been made to improve the distribution of information over the Internet. Configurable graphical displays of maps and sequences have been added to the web interface. A new client program gives all the functionality of the stand-alone ACEDB whilst getting its data transparently from a remote server. Three new displays have been written in Java. GridMap, which allows comparisons to be made between two sets of objects, a new genetic map display for linkage groups and a circular genome display to represent comparative data. All the resources developed as part of this project are distributed through the UK CropNet WWW server (http://synteny.nott.ac.uk/). The server also carries copies of 12 plant databases developed as part of the USDA plant database programme. All the databases and development sites are cross-queriable. To get a full appreciation of this resource come along for a demonstration at the computer displays. UK CropNet is funded by the BBSRC.

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