Draft Sequences of the Radish (Raphanus sativus L.) Genome

Kitashiba Hiroyasu, Li Feng, Hirakawa Hideki, Kawanabe Takahiro, Zou Zhongwei, Hasegawa Yoichi, Tonosaki Kaoru, Shirasawa Sachiko, Fukushima Aki, Yokoi Shuji, Yoshihito Takahata, Kakizaki Tomohiro, Ishida Masahiko, Okamoto Shunsuke, Sakamoto Koji, Shirasawa Kenta, Tabata Satoshi, Takeshi Nishio

研究成果: Article査読

115 被引用数 (Scopus)

抄録

Radish (Raphanussativus L., n = 9) is one of the major vegetables in Asia. Since thegenomes of Brassica and related species including radish underwent genome rearrangement, it is quite difficult to perform functional analysis based on the reported genomic sequence of Brassica rapa. Therefore, we performed genome sequencing of radish. Short reads of genomic sequences of 191.1 Gb were obtained by next-generation sequencing (NGS) fora radish inbred line, and 76,592 scaffolds of ≥300 bp were constructed along with the bacterial artificial chromosome-end sequences. Finally, the whole draft genomic sequence of 402 Mb spanning 75.9% of the estimated genomic size and containing 61,572 predicted genes was obtained. Subsequently, 221 single nucleotide polymorphism markers and 768 PCR-RFLP markers were used together with the 746 markers produced in our previous study for the construction of a linkage map. The map was combined further with another radish linkage map constructed mainly with expressed sequence tag-simple sequence repeat markers into a high-density integrated map of 1,166 cM with 2,553 DNA markers. A total of 1,345 scaffolds were assigned to the linkage map, spanning 116.0 Mb. Bulked PCR products amplified by 2,880 primer pairs were sequenced by NGS, and SNPs in eight inbred lines were identified.

本文言語English
ページ(範囲)481-490
ページ数10
ジャーナルDNA Research
21
5
DOI
出版ステータスPublished - 2014 10 1

ASJC Scopus subject areas

  • 分子生物学
  • 遺伝学

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