ncRNA genes controling a variation of secondary metabolites in Arabidopsis

• Project/Area Number: 25710017
• Research Category: Grant-in-Aid for Young Scientists (A)
• Allocation Type: Partial Multi-year Fund
• Research Field: Genome biology
• Research Institution: Kyushu Institute of Technology
• Principal Investigator: Kousuke Hanada 九州工業大学, 若手研究者フロンティア研究アカデミー, 准教授 (50462718)
• Project Period (FY): 2013-04-01 – 2016-03-31
• Project Status: Completed (Fiscal Year 2015)
• Budget Amount: ¥26,000,000 (Direct Cost: ¥20,000,000、Indirect Cost: ¥6,000,000); Fiscal Year 2015: ¥7,410,000 (Direct Cost: ¥5,700,000、Indirect Cost: ¥1,710,000); Fiscal Year 2014: ¥6,630,000 (Direct Cost: ¥5,100,000、Indirect Cost: ¥1,530,000); Fiscal Year 2013: ¥11,960,000 (Direct Cost: ¥9,200,000、Indirect Cost: ¥2,760,000)
• Keywords: 植物 / 二次代謝産物 / 2次代謝産物 / シロイヌナズナ / ゲノム関連解析 / 生態株 / ncRNA遺伝子 / 集団遺伝

Outline of Final Research Achievements

It is of interest to address how duplicate genes contributed to metabolic diversities in plants. We showed that recently duplicated genes contribute to a diversity of secondary metabolites in lineage-specific fashion. However, we also showed that these duplicate genes contribute to genetic robustness with preserving the same function. The diversity and redundancy in duplicate genes can be the cause for the hardness to identify genes related to each secondary metabolite. To solve the complexity, we propose a new approach to identify genes related to secondary metabolites by the diversities of secondary metabolites within a species. Using the genome association approach of both genome data and transcriptome data among accessions of A. thaliana, we can infer genes related to each of about secondary metabolites in A. thaliana. Consequently, we revealed that not only duplicated genes but also ncRNA genes contributed to the variation of secondary metabolites.

Research Products

• [Journal Article] Phytochrome controls alternative splicing to mediate light responses in Arabidopsis. (2014)
  • Author(s): Shikata, H., Hanada, K., Ushijima, T., Nakashima, M., Suzuki, Y. and Matsushita, T.
  • Journal Title: Proc Natl Acad Sci USA Volume: 111 Issue: 52 Pages: 18781-18786
  • DOI: 10.1073/pnas.1407147112
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Substantial expression of novel small open reading frames in Oryza sativa. (2014)
  • Author(s): Okamoto M, Higuchi-Takeuchi M, Shimizu M, Shinozaki K, Hanada K.
  • Journal Title: Plant Signaling & Behavior Volume: 9
  • Peer Reviewed
• [Presentation] 植物の多様性あるいは共通性の理解に比較ゲノム解析は有効か？ (2014)
  • Author(s): 花田 耕介
  • Organizer: 中国地域育種談話会
  • Place of Presentation: 鳥取大学 乾燥地研究センター
  • Year and Date: 2014-12-20 – 2014-12-21
  • Invited
• [Presentation] 植物科学研究におけるNGS解析の実際 (2014)
  • Author(s): 花田 耕介
  • Organizer: 次世代シーケンサー研究推進のためのデータ解析ワークショップ
  • Place of Presentation: 農林水産技術会議事務局筑波事務所
  • Year and Date: 2014-12-10 – 2014-12-11
  • Invited
• [Presentation] シロイヌナズナ集団内のメチル化の多様性から明らかになったメチル化が遺伝子発現に影響する役割 (2014)
  • Author(s): 花田 耕介
  • Organizer: 日本進化学会
  • Place of Presentation: 高槻現代劇場
  • Year and Date: 2014-08-21 – 2014-08-24
  • Invited
• [Presentation] 遺伝子間隙に存在する短い遺伝子の網羅的解析に向けて (2014)
  • Author(s): 花田 耕介
  • Organizer: 2014 アジレント ゲノミクスフォーラム
  • Place of Presentation: 国際ファッションセンター
  • Year and Date: 2014-06-05
  • Invited