Genome Sequence of Satsuma Mandarin and Comparison to Other Citrus Genome

Satsuma mandarin (Citrus unshiu Marc.) is a major citrus variety of Japan, and it is also produced in many citrus producing countries. More than 120 mutants have been selected that changed the profile of color break or acid reduction on fruit, color or smoothness of rind, shape of tree or fruit.  Satsuma mandarin has also occupied a pivotal position in Japanese citrus breeding program for a long time. Therefore the genome sequencing has been anticipated to contribute for both breeding and fruit production. In this study, we conducted de novo assembly of the Satsuma mandarin genome sequence using short read sequences obtained from ‘Miyagawa wase’ with Illumina HiSeq 2000 DNA sequencer.  Assembled reads were further joined by considering mate-pair reads at three different fragment sizes (3 kb, 5 kb, and 8 kb) with Platanus genome assembler (http://platanus.bio.titech.ac.jp/). The assembled sequence mostly agreed to the sequence of haploid Clementine.  Other features of the Satsuma mandarin genome sequence and deduced annotation will be introduced.