Publication Date:
2012-07-03
Description:
Background: Carnation (Dianthus caryophyllus L.), in the family Caryophyllaceae, can be found in a widerange of colors and is a model system for studies of flower senescence. In addition, it is oneof the most important flowers in the global floriculture industry. However, few genomicsresources, such as sequences and markers are available for carnation or other members of theCaryophyllaceae. To increase our understanding of the genetic control of importantcharacters in carnation, we generated an expressed sequence tag (EST) database for acarnation cultivar important in horticulture by high-throughput sequencing using 454pyrosequencing technology. Results: We constructed a normalized cDNA library and a 3'-UTR library of carnation, obtaining atotal of 1,162,126 high-quality reads. These reads were assembled into 300,740 unigenesconsisting of 37,844 contigs and 262,896 singlets. The contigs were searched against anArabidopsis sequence database, and 61.8 % (23,380) of them had at least one BLASTX hit.These contigs were also annotated with Gene Ontology (GO) and were found to cover abroad range of GO categories. Furthermore, we identified 17,362 potential simple sequencerepeats (SSRs) in 14,291 of the unigenes. We focused on gene discovery in the areas offlower color and ethylene biosynthesis. Transcripts were identified for almost every geneinvolved in flower chlorophyll and carotenoid metabolism and in anthocyanin biosynthesis.Transcripts were also identified for every step in the ethylene biosynthesis pathway. Conclusions: We present the first large-scale sequence data set for carnation, generated using nextgenerationsequencing technology. The large EST database generated from these sequences isan informative resource for identifying genes involved in various biological processes incarnation and provides an EST resource for understanding the genetic diversity of this plant.
Electronic ISSN:
1471-2164
Topics:
Biology
Permalink