Heterogeneity of Arabidopsis core promoter architecture revealed by high density TSS mapping

Abstract

We have developed a novel method for large scale TSS mapping. The method is composed of a combination of Cap Trapper for preparation of 5' end of full-length cDNA, and Massively Parallel Signature Sequencing (MPSS) for high throughput DNA sequencing. Using this novel method, called CT-MPSS, we have prepared large scale TSS information from Arabidopsis. We have previously identified novel core promoter elements from plant promoters (Yamamoto et al, BMC Genomics 8: 67, 2007; Yamamoto et al, Nucleic Acids Res 35: 6219, 2007), and their relationship to transcriptional characteristics was analyzed using the TSS information. The information of novel core promoter elements and large scale TSS analyses are served by our database (ppdb: Plant Promoter Database, http://ppdb.gene.nagoya-u.ac.jp).