期刊
DNA RESEARCH
卷 18, 期 5, 页码 321-332出版社
OXFORD UNIV PRESS
DOI: 10.1093/dnares/dsr019
关键词
abiotic stress; cis-motif; database; grasses; transcription factor
资金
- Ministry of Education, Culture, Sports, Science and Technology of Japan [21780011, 21870046]
- RIKEN Yokohama Institute [M36-57000]
- Grants-in-Aid for Scientific Research [21780011, 21870046] Funding Source: KAKEN
The interactions between transcription factors (TFs) and cis-regulatory DNA sequences control gene expression, constituting the essential functional linkages of gene regulatory networks. The aim of this study is to identify and integrate all putative TFs from six grass species: Brachypodium distachyon, maize, rice, sorghum, barley, and wheat with significant information into an integrative database (GramineaeTFDB) for comparative genomics and functional genomics. For each TF, sequence features, promoter regions, domain alignments, GO assignment, FL-cDNA information, if available, and cross-references to various public databases and genetic resources are provided. Additionally, GramineaeTFDB possesses a tool which aids the users to search for putative cis-elements located in the promoter regions of TFs and predict the functions of the TFs using cis-element-based functional prediction approach. We also supplied hyperlinks to expression profiles of those TF genes of maize, rice, and barley, for which data are available. Furthermore, information about the availability of FOX and Ds mutant lines for rice and maize TFs, respectively, are also accessible through hyperlinks. Our study provides an important user-friendly public resource for functional analyses and comparative genomics of grass TFs, and understanding of the architecture of transcriptional regulatory networks and evolution of the TFs in agriculturally important cereal crops.
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