Biochemical analysis of small RNA-induced epigenetic changes

• Project/Area Number: 26710011
• Research Category: Grant-in-Aid for Young Scientists (A)
• Allocation Type: Partial Multi-year Fund
• Research Field: Genome biology
• Research Institution: Keio University
• Principal Investigator: YAMANAKA SOICHIRO 慶應義塾大学, 医学部, 助教 (80711845)
• Project Period (FY): 2014-04-01 – 2017-03-31
• Project Status: Completed (Fiscal Year 2016)
• Budget Amount: ¥24,050,000 (Direct Cost: ¥18,500,000、Indirect Cost: ¥5,550,000); Fiscal Year 2016: ¥7,540,000 (Direct Cost: ¥5,800,000、Indirect Cost: ¥1,740,000); Fiscal Year 2015: ¥7,540,000 (Direct Cost: ¥5,800,000、Indirect Cost: ¥1,740,000); Fiscal Year 2014: ¥8,970,000 (Direct Cost: ¥6,900,000、Indirect Cost: ¥2,070,000)
• Keywords: 小分子RNA / トランスポゾン / 生殖細胞 / ATAC-seq / ゲノム / CRISPR/Cas9 / リピート配列 / クロマチン / ヘテロクロマチン / piRNA / エピジェネティクス / 遺伝子発現制御

Outline of Final Research Achievements

More than 45% of human genome consists of transposons and its remnants. Transpositional events of them are deleterious to their hosts, especially in their gonads. Here, I am engaged in how small RNA would induce transcriptional silencing at transposon sequences, by using both fly and mouse systems. For fly system, I am trying to establish a method to proteomically identify the chromatin components at specific genomic region. For mouse system, I have profiled the chromatin dynamics in the small number of germ cells within the whole testis, and comprehensively described its temporal change in detail, particularly at transposon sequences.

Research Products

• [Journal Article] Misprocessed tRNA response targets piRNA clusters (2015)
  • Author(s): Soichiro Yamanaka, Haruhiko Siomi
  • Journal Title: EMBO J Volume: 34 Issue: 24 Pages: 2988-9
  • DOI: 10.15252/embj.201593322
  • Peer Reviewed / Open Access
• [Journal Article] piRNA clusters and open chromatin structure. (2014)
  • Author(s): Yamanaka, S., Siomi, MC. and Siomi, H.
  • Journal Title: Mobile DNA Volume: 5 Issue: 1 Pages: 22-22
  • DOI: 10.1186/1759-8753-5-22
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Presentation] Developing a novel method to identify chromatin components at transposons using CRISPR/Cas9 system (2016)
  • Author(s): Soichiro Yamanaka, Ten Li, Takeshi Kawamura, Tatsuhiko Kodama, Haruhiko Siomi
  • Organizer: 国際RNA学会
  • Place of Presentation: 京都、国際会議場
  • Year and Date: 2016-06-28
  • Int'l Joint Research
• [Presentation] Developing a novel method to identify chromatin components at transposons using CRISPR/Cas9 system (2016)
  • Author(s): Soichiro Yamanaka, Ten Li, Takeshi Kawamura, Tatsuhiko Kodama, Haruhiko Siomi
  • Organizer: RNA2016 Meeting
  • Place of Presentation: 国立京都国際会館(京都府京都市)
  • Year and Date: 2016-06-28
  • Int'l Joint Research
• [Book] 細胞工学 (2015)
  • Author(s): 山中総一郎、塩見春彦
  • Total Pages: 6
  • Publisher: 学研メディカル秀潤社
• [Book] 実験医学 (2015)
  • Author(s): 山中総一郎
  • Total Pages: 2
  • Publisher: 羊土社
• [Remarks] 慶應義塾大学 医学部 分子生物学教室 ホームページ
  • URL: http://siomilab.med.keio.ac.jp