Abstract
The genome sequences of various kinds of plant species, such as cereals, vegetables, fruits, and flowers, have been determined. The genome sequence of carnation (Dianthus caryophyllus) cultivar ‘Francesco’ was first determined as a floricultural crop using next-generation sequencing data obtained by Illumina HiSeq and 454 GS FLX+ platforms. The genome size of the carnation was estimated as 638.7 Mb. The draft genome sequence DCA_r1.0 was determined by a combination of three kinds of de novo assemblers. The total and N50 lengths of the draft genome sequence were 568,887,315 bp and 60,737 bp, respectively. Of 56,382 transcripts identified by the gene prediction, 43,491 were determined to be genes without transposable elements. The genes were annotated by similarity searches against the UniProtKB/TrEMBL, TAIR10, and RAP-DB databases and by domain searches against the InterPro database. The genes were mapped onto the KEGG pathways and classified into gene ontology (GO) groups and EuKaryotic Orthologous Groups (KOG) of proteins. The genome data are available from the Carnation DB (https://plant1.kazusa.or.jp/carnation/). The 496 DNA markers of carnation, including 491 SSR markers, have been released from the Plant Genome DataBase Japan (PGDBj) (http://pgdbj.jp). As genome data and DNA markers accumulate, studies of the molecular genetics of carnation would be promoted, and molecular breeding would be made more effective.
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Hirakawa, H. (2020). Draft Genome Sequence. In: Onozaki, T., Yagi, M. (eds) The Carnation Genome. Compendium of Plant Genomes. Springer, Singapore. https://doi.org/10.1007/978-981-15-8261-5_1
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