title: Regulatory motifs identified from a maize developmental coexpression network.
abstract: Transcriptional control is an important determinant of plant development, and distinct modules of coordinated genes characterize the maize developmental transcriptome. Upstream regulatory sequences are often the primary factors that control gene expression pattern and abundance. Here, we identify 244 regulatory motifs that are significantly enriched within 24 gene expression modules previously constructed from transcript abundances of 34,876 Zea mays (maize) gene models from embryogenesis to senescence. Within modules, we identify motifs that have not been characterized. In addition, we identify motifs similar to experimentally verified motifs, and the functions of these motifs overlap with predicted module functions. This work demonstrates the power of transcript-level coexpression modules to identify both variants of known regulatory motifs and novel motifs that control a species' developmental transcriptome.
authors.affiliation: a Department of Plant Agriculture, University of Guelph, Guelph, ON N1G 2W1, Canada.
authors.forename: Gregory S
authors.initials: GS
authors.lastname: Downs
authors.forename: Christophe
authors.initials: C
authors.lastname: Liseron-Monfils
authors.forename: Lewis N
authors.initials: LN
authors.lastname: Lukens
mesh_terms: D020121:5' Untranslated Regions; D018507:Gene Expression Regulation, Developmental; D018506:Gene Expression Regulation, Plant; D053263:Gene Regulatory Networks; D059372:Nucleotide Motifs; D063245:Plant Development / Q000235:genetics*; D056510:Position-Specific Scoring Matrices; D003313:Zea mays / Q000235:genetics* / Q000254:growth & development
chemical_list: D020121:5' Untranslated Regions
keywords: 5′ upstream regulatory sequences; Promzea; Zea mays; coexpression network; développement de la plante; identification de motifs; motif identification; plant development; réseau de coexpression; séquences régulatrices en 5′