W180 Sol Genomics Network (http://solgenomics.net/): A Resource for Coffee Genomics

Date: Sunday, January 15, 2012
Time: 4:30 PM
Room: Sunset
Lukas Mueller , Boyces Thompson Institute for Plant Research, Ithaca, NY
Susan R. Strickler , Boyce Thompson Institute for Plant Research, Ithaca, NY
Naama Menda , Boyce Thompson Institute for Plant Research, Ithaca, NY
Aureliano Bombarely Gomez , Boyce Thompson Institute for Plant Research, Ithaca, NY
Jonathan Leto , Boyce Thompson Institute for Plant Research, Ithaca, NY
Robert Buels , Boyce Thompson Institute for Plant Research, Ithaca, NY
Joseph Gosselin , Boyce Thompson Institute for Plant Research, Ithaca, NY
The Sol Genomics Nework (SGN, http://solgenomics.net/) is a clade oriented database for the Solanaceae and closely related Asterids such as Rubiaceae, including coffee. Currently, SGN has several resources available for coffee, such as annotated transcript assemblies, a community curated set of over a hundred loci, and CoffeaCyc, a pathway database based on the Pathway Tools software suite. The SGN database has many further resources that as of yet do not contain coffee data. For example, SGN can store phenotypic and genotypic information for plant accessions. Currently, there are only a handful of coffee accessions in the database, and no genotypic information has been uploaded. Easy to use web interfaces for users to provide these data are available. If both genotypic and phenotypic information are in the database, for certain types of mapping populations, SGN can perform QTL and other analyses directly on the web. SGN also has a number of comparative features based on genetic maps, full genome sequences, and gene family data that we would like to apply to coffee in the near future.