GRASSIUS: A Platform for Comparative Regulatory Genomics across the Grasses

Autor(es)

Yilmaz, Alper ^{[1, 2]} ; Nishiyama, Jr., Milton Y. ^[3] ; Fuentes, Bernardo Garcia ^{[1, 2]} ; Souza, Glaucia Mendes ^[3] ; Janies, Daniel ^[4] ; Gray, John ^[5] ; Grotewold, Erich ^{[1, 2]}

Afiliação do(s) autor(es)

^[1] Ohio State Univ, Dept Plant Cellular & Mol Biol, Columbus, OH 43210 - USA

^[2] Ohio State Univ, Ctr Plant Biotechnol, Columbus, OH 43210 - USA

^[3] Univ Sao Paulo, Inst Quim, Dept Bioquim, BR-01498 Sao Paulo - Brazil

^[4] Ohio State Univ, Dept Biomed Informat, Columbus, OH 43210 - USA

^[5] Univ Toledo, Dept Biol, Toledo, OH 43606 - USA

• Tipo de documento: Artigo Científico
• Fonte: Plant Physiology; v. 149, n. 1, p. 171-180, Jan. 2009.
• Área do conhecimento: Ciências Biológicas - Bioquímica
• Citações Web of Science: 138
• Assunto(s): Genomas Fator de transcrição AP-1 Plantas Poaceae

Resumo

Transcription factors (TFs) are major players in gene regulatory networks and interactions between TFs and their target genes furnish spatiotemporal patterns of gene expression. Establishing the architecture of regulatory networks requires gathering information on TFs, their targets in the genome, and the corresponding binding sites. We have developed GRASSIUS (Grass Regulatory Information Services) as a knowledge-based Web resource that integrates information on TFs and gene promoters across the grasses. In its initial implementation, GRASSIUS consists of two separate, yet linked, databases. GrassTFDB holds information on TFs from maize (Zea mays), sorghum (Sorghum bicolor), sugarcane (Saccharum spp.), and rice (Oryza sativa). TFs are classified into families and phylogenetic relationships begin to uncover orthologous relationships among the participating species. This database also provides a centralized clearinghouse for TF synonyms in the grasses. GrassTFDB is linked to the grass TFome collection, which provides clones in recombination-based vectors corresponding to full-length open reading frames for a growing number of grass TFs. GrassPROMDB contains promoter and cis-regulatory element information for those grass species and genes for which enough data are available. The integration of GrassTFDB and GrassPROMDB will be accomplished through GrassRegNet as a first step in representing the architecture of grass regulatory networks. (AU)

• Processo FAPESP: 08/52146-0 - Sugarcane signaling and regulatory networks
• Beneficiário: Glaucia Mendes Souza
• Modalidade de apoio: Auxílio à Pesquisa - Programa BIOEN - Temático