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Nucleic Acids Res. 2015 Jan;43(Database issue):D1036-41. doi: 10.1093/nar/gku1195. Epub 2014 Nov 26.

The Sol Genomics Network (SGN)--from genotype to phenotype to breeding.

Author information

1
Boyce Thompson Institute for Plant Research, Ithaca, NY 14853, USA.
2
Dale Bumpers National Rice Research Center, Stuttgart, AR 72160, USA.
3
Boyce Thompson Institute for Plant Research, Ithaca, NY 14853, USA Department of Plant Pathology and Plant-Microbe Biology, Cornell University, Ithaca, NY 14853, USA.
4
Department of Horticulture, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061-0002, USA.
5
Boyce Thompson Institute for Plant Research, Ithaca, NY 14853, USA Department of Plant Breeding, Cornell University, Ithaca, NY 14853, USA lam87@cornell.edu.

Abstract

The Sol Genomics Network (SGN, http://solgenomics.net) is a web portal with genomic and phenotypic data, and analysis tools for the Solanaceae family and close relatives. SGN hosts whole genome data for an increasing number of Solanaceae family members including tomato, potato, pepper, eggplant, tobacco and Nicotiana benthamiana. The database also stores loci and phenotype data, which researchers can upload and edit with user-friendly web interfaces. Tools such as BLAST, GBrowse and JBrowse for browsing genomes, expression and map data viewers, a locus community annotation system and a QTL analysis tools are available. A new tool was recently implemented to improve Virus-Induced Gene Silencing (VIGS) constructs called the SGN VIGS tool. With the growing genomic and phenotypic data in the database, SGN is now advancing to develop new web-based breeding tools and implement the code and database structure for other species or clade-specific databases.

PMID:
25428362
PMCID:
PMC4383978
DOI:
10.1093/nar/gku1195
[Indexed for MEDLINE]
Free PMC Article

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