Abstract
Sequence-specific transcription factors (TFs) assume the role of molecular switches that regulate various biological processes in transcriptional networks. Therefore, genome-wide identification and functional characterization of TF-encoding genes is a practical approach to elucidate cellular systems as well as to discover the master switch that regulates cellular functions. In this chapter, we addressed genome-wide TF repertory in jatropha (Jatropha curcas) plant. In the jatropha genome, we identified 1481 putative TF-encoding gene models that are classified into 61 TF families by using a computational pipeline that we designed to identify plant TFs. Bioinformatics-based analyses used to characterize the putative TF-encoding genes, such as gene ontology annotation, structural analysis of promoter regions, and comparative analysis of putative orthologs, will aid us in inferring functions of each TF. Finally, we introduce a Web-accessible database TreeTFDB (http://treetfdb.bmep.riken.jp/index.pl), housing information on the TF sets from jatropha genome and five other tree species, cassava (Manihot esculenta), poplar (Populus trichocarpa), castor bean (Ricinus communis), and grapevine (Vitis vinifera).
Published Version
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