Regulation of fate-determination of RNA and role of transcriptional machinery in heterochromatin formatin

2009 Fiscal Year Final Research Report

• Project/Area Number: 20052013
• Research Category: Grant-in-Aid for Scientific Research on Priority Areas
• Allocation Type: Single-year Grants
• Review Section: Biological Sciences
• Research Institution: Kyoto University
• Principal Investigator: MURAKAMI Yota Kyoto University, 大学院・先端生命科学研究院, 教授 (20260622)
• Project Period (FY): 2008 – 2009
• Keywords: 転写 / RNAポリメラーゼII / クロマチン / RNAプロセシング

Research Abstract

mRNA and non-coding RNA, both of which are transcribed by RNA polymerase II, have different fate with different RNA processing processes. We analyzed the mechanism for the fate-determination mechanism and found that transcriptional elongation factors were involved in fate-determination process of heterochromatic ncRNA in fission yeast. We also found that fission yeast heterochromatin ncRNA formed DNA:RNA hybrid to remain on chromatin and plays a role in heterochromatin formation. In addition, we revealed the mechanism to regulate elongation of transcription by transcriptional elongation factors.

Research Products

• [Journal Article] Dynamic regulation of heterochromatin via phosphorylation of HP1-family proteins. (2010)
  • Author(s): Shimada A., Murakami Y.
  • Journal Title: Epigenetics 5 Pages: 30-33
  • Peer Reviewed
• [Journal Article] the Paf1 complex, and Tat-SF1 have non-redundant, cooperative roles in RNA polymerase II elongation. (2009)
  • Author(s): Chen Y., Yamaguchi Y., Tsugeno Y, Yamamoto J., Yamada T, Nakamura M, Hisatake K., Handa H. DSIF
  • Journal Title: Genes & Dev. 23 Pages: 2765-77
  • Peer Reviewed
• [Journal Article] ole of N-end rule ubiquitin ligases UBR1 and UBR2 in regulating the leucine-mTOR signaling pathway. (2009)
  • Author(s): Kume K., Iizumi Y., Shimada M., Ito Y., Kishi T., Yamaguchi Y., Handa H.
  • Journal Title: Genes Cells 15 Pages: 339-49
  • Peer Reviewed
• [Journal Article] Phosphorylation of Swi6/HP1 regulates transcriptional gene silencing at heterochromatin. (2009)
  • Author(s): Shimada A., Dohke K., Sadaie M., Shinmyozu, K., Nakayama, J-I., Urano, T., Murakami, Y.
  • Journal Title: Genes & Dev. 23 Pages: 18-23
  • Peer Reviewed
• [Journal Article] Cellular dynamics of the negative transcription elongation factor NELF. (2009)
  • Author(s): Yung T., Narita T., Komori T., Yamaguchi Y., Handa H.
  • Journal Title: Exp. Cell. Res. 315 Pages: 1693-705
  • Peer Reviewed
• [Journal Article] The role of human transcription elongation factor DSIF in the suppression of senescence and apoptosis. (2009)
  • Author(s): Komori T., Inukai N., Yamada T., Yamaguchi Y., Handa H.
  • Journal Title: Genes Cells 14 Pages: 343-45
  • Peer Reviewed
• [Journal Article] A new APE1/Ref-1-dependent pathway leading to reduction of NF-kB and AP-1, and activation of their DNA-binding activity. (2008)
  • Author(s): Ando K. Hirao S., Kabe Y., Ogura Y. Sato I., Yamaguchi Y., Handa H.
  • Journal Title: Nucleic Acids Res. 36 Pages: 4327-36
  • Peer Reviewed
• [Journal Article] Fission yeast chromatin assembly factor 1 assists in the replication-coupled maintenance of heterochromatin. (2008)
  • Author(s): Dohke K., S. Miyazaki, Tanaka, K., Urano, T., Grewal, S., Murakami, Y.
  • Journal Title: Genes to Cells 13 Pages: 1027-43
  • Peer Reviewed
• [Journal Article] Schizosaccharomyces pombe Orc5 plays multiple roles in the maintenance of genome stability throughout the cell cycle. (2008)
  • Author(s): Kato H., Matsunaga, F., Miyazaki S., Yin, L., D'Urso, G, Tanaka, K., Murakami, Y.
  • Journal Title: Cell Cycle 7 Pages: 1083-1094
  • Peer Reviewed
• [Presentation] Potential role of transcription elongation factors and elongation control in differentiation and maintenance of ES cells. (2010)
  • Author(s): Yamaguchi Y.
  • Organizer: Japan-Israel Workshop on Stem Cells
  • Place of Presentation: Jerusalem, Israel
  • Year and Date: 2010-02-25
• [Presentation] Dynamic Regulation of heterochromatin sturucture/function in the cell cycle (2009)
  • Author(s): 村上洋太
  • Organizer: 第32回日本分子生物学会年会ワークショップ「染色体倍加装置のダイナミクス」
  • Place of Presentation: 神奈川県横浜市
  • Year and Date: 20091209-20091212
• [Presentation] Dynamic Regulation of Heterochrimatin (2009)
  • Author(s): Murakami, Y.
  • Organizer: The fifth International Fission Yeast Meeting
  • Place of Presentation: 東京都
  • Year and Date: 20091026-20091031
• [Presentation] Dynamic Regulation of Heterochrimatin (2009)
  • Author(s): 村上洋太
  • Organizer: 第24回内藤カンファレンス"Nuclear Dynamics and RNA [II]
  • Place of Presentation: 札幌市
  • Year and Date: 20090623-20090626
• [Presentation] Mechanism of phosphorylation-dependent elongation activation by DSIF. (2009)
  • Author(s): Yamaguchi Y
  • Organizer: EMBO Workshop on Messenger RNA 3' Ends & Gene Expression
  • Place of Presentation: Oxford, UK
  • Year and Date: 2009-09-18
• [Presentation] DSIF, the Paf1 complex, and Tat-SF1 have non-redundant, cooperative roles in RNA polymerase II elongation. (2009)
  • Author(s): Yamaguchi Y.
  • Organizer: CSHL Meeting on Mechanisms of Eukaryotic Transcription
  • Place of Presentation: New York, USA
  • Year and Date: 2009-08-27
• [Presentation] 転写伸長反応制御のメカニズム (2008)
  • Author(s): 山口雄輝
  • Organizer: 第31回日本分子生物学会年会
  • Place of Presentation: 神戸
  • Year and Date: 20081209-20081212
• [Presentation] ヘテロクロマチンのダイナミクス (2008)
  • Author(s): 村上洋太
  • Organizer: 蛋白研セミナー
  • Place of Presentation: 大阪
  • Year and Date: 20081030-20081031
• [Presentation] Dynamic organization of heterochromatin (2008)
  • Author(s): Murakami, Y.
  • Organizer: Chromosome segregation: Centromeres & Kinetochores, Archachon
  • Place of Presentation: Bordeaux, France
  • Year and Date: 20080927-20081002
• [Presentation] DSIF, the Paf1 complex, and Tat-SF1 have non-redundant, cooperative roles in RNA polymerase II elongation (2008)
  • Author(s): Yamaguchi, Y., Chen, Y., Tsugeno, Y., Handa, H
  • Organizer: The 8th EMBL Transcription Meeting
  • Place of Presentation: Heidelberg, Germany
  • Year and Date: 20080823-20080827
• [Presentation] Regulation of heterochromatin function by phosphorylation. (2008)
  • Author(s): Shimada, A., Sadaie, M., Nakayama, J-I., Murakami Y.
  • Organizer: Asia-Pacific Regional S. pombe Meeting
  • Place of Presentation: Singapore
  • Year and Date: 20080725-20080727
• [Presentation] Multifaceted gene regulation by transcription elongation factors (2008)
  • Author(s): Yamaguchi Y.
  • Organizer: The 21st Naito Conference on Nuclear Dynamics and RNA [I]
  • Place of Presentation: 山梨
  • Year and Date: 20080624-20080627
• [Presentation] RNAiに依存するヘテロクロマチン形成におけるnon-coding RNAの転写とダイナミクス (2008)
  • Author(s): 村上洋太
  • Organizer: 第2回日本エピジェネティクス研究会年会
  • Place of Presentation: 三島
  • Year and Date: 20080509-20080510