GrainGenes 2.0. an improved resource for the small-grains community.
GrainGenes (http://wheat.pw.usda.gov) is an international database for genetic and genomic information about Triticeae species (wheat [Triticum aestivum], barley [Hordeum vulgare], rye [Secale cereale], and their wild relatives) and oat (Avena sativa) and its wild relatives. A major strength of the GrainGenes project is the interaction of the curators with database users in the research community, placing GrainGenes as both a data repository and information hub. The primary intensively curated data classes are genetic and physical maps, probes used for mapping, classical genes, quantitative trait loci, and contact information for Triticeae and oat scientists. Curation of these classes involves important contributions from the GrainGenes community, both as primary data sources and reviewers of published data. Other partially automated data classes include literature references, sequences, and links to other databases. Beyond the GrainGenes database per se, the Web site incorporates other more specific databases, informational topics, and downloadable files. For example, unique BLAST datasets of sequences applicable to Triticeae research include mapped wheat expressed sequence tags, expressed sequence tag-derived simple sequence repeats, and repetitive sequences. In 2004, the GrainGenes project migrated from the AceDB database and separate Web site to an integrated relational database and Internet resource, a major step forward in database delivery. The process of this migration and its impacts on database curation and maintenance are described, and a perspective on how a genomic database can expedite research and crop improvement is provided.
Carollo
Victoria
V
United States Department of Agriculture, Agricultural Research Service, Western Regional Research Center, Albany, California 94710, USA. vcarollo@pw.usda.gov
Matthews
David E
DE
Lazo
Gerard R
GR
Blake
Thomas K
TK
Hummel
David D
DD
Lui
Nancy
N
Hane
David L
DL
Anderson
Olin D
OD
D001947:Breeding; D002874:Chromosome Mapping; D019295:Computational Biology; D030541:Databases, Genetic; D002523:Edible Grain / Q000235:genetics*; D018745:Genome, Plant; D023281:Genomics; D020407:Internet; D010935:Plant Diseases / Q000235:genetics; D040641:Quantitative Trait Loci; D017421:Sequence Analysis; D012984:Software