Transcriptional mechanism of noncoding RNA

• Project/Area Number: 22390057
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: General medical chemistry
• Research Institution: Saitama Medical University
• Principal Investigator: KUROKAWA Riki 埼玉医科大学, 医学部, 教授 (70170107)
• Co-Investigator(Renkei-kenkyūsha): MATSUSITA Akio 埼玉医科大学, 医学部, 客員講師 (50402269) ; OGAWA Sumito 東京大学, 医学部附属病院, 講師 (20323579)
• Project Period (FY): 2010 – 2012
• Project Status: Completed (Fiscal Year 2012)
• Budget Amount: ¥18,850,000 (Direct Cost: ¥14,500,000、Indirect Cost: ¥4,350,000); Fiscal Year 2012: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000); Fiscal Year 2011: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000); Fiscal Year 2010: ¥9,490,000 (Direct Cost: ¥7,300,000、Indirect Cost: ¥2,190,000)
• Keywords: 酵素 / 遺伝子 / 核酸 / 生体分子 / 発現制御

Research Abstract

We have identified that promoter-derived noncoding RNA (pncRNA) is transcribed from the promoter region of the cyclin D1 gene and represses the expression of the gene (Nature 434: 126, 2008). We have also determined a transcriptional initiation site of pncRNA and purified transcription factors inducing the transcription of pncRNA. The purification provided five proteins involving DNA repair and two of paraspeckle-related proteins. These data suggest that the transcription of the pncRNA requires the DNA repair system and the transcription is located in the paraspeckle area of nuclei. This will enhance elucidation of novel mechanisms of the ncRNA transcription.

Research Products

• [Journal Article] Regulatjon of Telomere Length by G-Quadruplex Telomere DNA- and T ERRA・Binding Protain TLSiFUS. (2013)
  • Author(s): 高濱 謙太朗
  • Journal Title: Chemistry & Biology誌 Volume: 20 Issue: 3 Pages: 341-350
  • DOI: 10.1016/j.chembiol.2013.02.013
  • Peer Reviewed
• [Journal Article] RNAのメチル化も遺伝子発現を制御していた (2013)
  • Author(s): 黒川 理樹
  • Journal Title: 実験医学 Volume: Vol.31 Pages: 58-59
• [Journal Article] Structure of noncoding RNA is a determinant of function of RNA binding proteins in transcriptional regulation. (2012)
  • Author(s): Oyoshi, T., and Kurokawa, R.
  • Journal Title: Cell & Bioscience Volume: 2 Issue: 1 Pages: 1-1
  • DOI: 10.1186/2045-3701-2-1
  • Peer Reviewed
• [Journal Article] 小分子非コードpiRNAとDNAメチル化が長期記憶を誘導する (2012)
  • Author(s): 黒川 理樹
  • Journal Title: 実験医学 Volume: Vol.30 Pages: 1925-1926
• [Journal Article] 非コードRNAとポリコームメチル化か核局在を決め遺伝子を制御する (2012)
  • Author(s): 黒川理樹
  • Journal Title: 実験医学 Volume: Vol.30 Pages: 458-459
• [Journal Article] Loop Lengths of G-Quadruplex Structures Affect the G-Quadruplex DNA Binding Selectivity of the RGG Motif in Ewing's Sarcoma. (2011)
  • Author(s): Takahama, K., Sugimoto, C., Arai, S., Kurokawa, R., and Oyoshi, T.
  • Journal Title: Biochemistry Volume: 50 Issue: 23 Pages: 5369-5378
  • DOI: 10.1021/bi2003857
  • Peer Reviewed
• [Journal Article] Identification of Ewing's sarcoma protein as a G-quadruplex DNA- and RNA-binding protein (2011)
  • Author(s): Takahama, K., Kino, K., Arai, S., Kurokawa, R., and Oyoshi, T.
  • Journal Title: FEBS Journal Volume: 278 Issue: 6 Pages: 988-998
  • DOI: 10.1111/j.1742-4658.2011.08020.x
  • Peer Reviewed
• [Journal Article] TLS and PRMT1 synergistically coactivate transcription at the survivin promoter through TLS arginine methylation (2011)
  • Author(s): Du, K., Arai, S., Kawamura, T., Matsushita, A., and Kurokawa, R.
  • Journal Title: BBRC Volume: 404 Issue: 4 Pages: 991-996
  • DOI: 10.1016/j.bbrc.2010.12.097
  • Peer Reviewed
• [Journal Article] Long Noncoding RNA as a Regulator for Transcription. In: Ugarkovic, D.(ed) Long Non-Coding RNAs (2011)
  • Author(s): Kurokawa, R.
  • Journal Title: Progress in Molecular and Subcellular Biology 51 Volume: 2 Pages: 29-41
  • DOI: 10.1007/978-3-642-16502-3_2
  • ISBN: 9783642165016, 9783642165023
  • Peer Reviewed
• [Journal Article] FUS/TLS構造と機能からALS病態をみる (2011)
  • Author(s): 黒川理樹
  • Journal Title: 臨床神経科学 Volume: Vol.29 Pages: 1032-1034
• [Journal Article] 遺伝子発現は転写と翻訳で制御されるが、どちらが主役か? (2011)
  • Author(s): 黒川理樹
  • Journal Title: 実験医学 Volume: Vol.29 Pages: 2258-2259
• [Journal Article] 新生RNAのDeep sequencingで明らかになる真核ゲノムの転写動態 (2011)
  • Author(s): 黒川理樹
  • Journal Title: 実験医学 Volume: Vol.29 Pages: 1263-1264
• [Journal Article] Identification of Ewing' s sarcoma protein as a G-quadruplex DNA-and RNA-binding protein. (2011)
  • Author(s): Takahama, K.
  • Journal Title: FEBS Journal Volume: 278 Pages: 988-998
  • Peer Reviewed
• [Journal Article] TLS and PRMT1 synergistically coactivate transcription at the survivin promoter through TLS arginine methylation. (2011)
  • Author(s): Du, K.
  • Journal Title: BBRC Volume: 404 Pages: 991-996
  • Peer Reviewed
• [Journal Article] Long Noncoding RNA as a Regulator for Transcription. (2011)
  • Author(s): Kurokawa, R.
  • Journal Title: Progress in Molecular and Subcellular Biology. Volume: 51 Pages: 29-41
  • Peer Reviewed
• [Journal Article] Id4, a new candidate gene for senile osteoporosis, acts as a molecular switch promoting osteoblast differentiation. (2010)
  • Author(s): okuzawa, Y., Yagi, K., Yamashita ,Y., Nakachi, Y., Nikaido, I., Bono, H., Ninomiya, Y., Kanesaki-Yatsuka, Y., Akita, M., Motegi, H., Wakana, S., Noda, T., Sablitzky, F., Arai, S., Kurokawa, R., Fukuda, T., Katagiri, T., Schonbach, C., Suda, T., Mizuno, Y., and Okazaki, Y.
  • Journal Title: PLoS Genet Volume: 6
  • Peer Reviewed
• [Journal Article] ヌクレオソームの配置がDNAメチル化を決めていた (2010)
  • Author(s): 黒川理樹
  • Journal Title: 実験医学 Volume: 28巻・14号 Pages: 2238-2239
• [Journal Article] 転写を制御する長鎖noncoding RNA (2010)
  • Author(s): 黒川理樹
  • Journal Title: 実験医学 Volume: 28巻・10号 Pages: 43-48
• [Presentation] 長鎖非コード RNA 機能の分子機構-核酸医薬の可能性 (2012)
  • Author(s): 黒川 理樹
  • Organizer: 第35回日本分子生物学会年会
  • Place of Presentation: 福岡県福岡市
  • Year and Date: 2012-12-12
• [Presentation] Long noncoding RNA as an epigenetic regulatory factor. (2012)
  • Author(s): Kurokawa, R.
  • Organizer: 第71回日本癌学会学術総会
  • Place of Presentation: 北海道札幌市
  • Year and Date: 2012-09-20
• [Presentation] Long noncoding RNA, a counterpart of microRNA, works as a transcriptional regulator. Is lncRNA a potential target for nucleic acid medicine? (2012)
  • Author(s): Kurokawa, R.
  • Organizer: 第4回日本 RNAi 研究会
  • Place of Presentation: 広島県広島市
  • Year and Date: 2012-08-30
• [Presentation] Promoter-associated noncoding RNA and Arginine-specific Methylation of RNA-binding protein TLS. (2012)
  • Author(s): Kurokawa, R.
  • Organizer: Keystone Symposia
  • Place of Presentation: Utah, USA
  • Year and Date: 2012-04-04
• [Presentation] 長鎖非コードRNA機能の分子機構-核酸医薬の可能性 (2012)
  • Author(s): 黒川 理樹
  • Organizer: 第35回日本分子生物学会年会 ワークショップ主催
  • Place of Presentation: 福岡県福岡市
  • Invited
• [Presentation] エピゲノム制御因子としての長鎖非コードＲＮＡ (2012)
  • Author(s): 黒川 理樹
  • Organizer: 第71回日本癌学会学術総会
  • Place of Presentation: 北海道札幌市
  • Invited
• [Presentation] マイクロRNAのカウンターパート長鎖非コードRNAは転写を制御する-LncRNAは核酸医薬のシードになりうるか？ (2012)
  • Author(s): 黒川 理樹
  • Organizer: 第4回日本RNAi研究会
  • Place of Presentation: 広島県広島市
  • Invited
• [Presentation] Promoter-associated noncoding RNA and Arginine-specific Methylation of RNA-binding protein TLS. (2012)
  • Author(s): Kurokawa, R.
  • Organizer: Keystone Symposia
  • Place of Presentation: Snowbird, Utah, USA
  • Invited
• [Presentation] 長鎖非コード RNA とエピゲノム制御 (2011)
  • Author(s): 黒川 理樹
  • Organizer: 第34回日本分子生物学会年会
  • Place of Presentation: 神奈川県横浜市
  • Year and Date: 2011-12-16
• [Presentation] 長鎖非コードRNAとエピゲノム制御(Long noncoding RNA and Epigenetic Regulation.) (2011)
  • Author(s): 黒川理樹
  • Organizer: 第34回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜(神奈川県)(招待講演)
  • Year and Date: 2011-12-16
• [Presentation] TLS-CHOP, an Oncogenic Fusion Product in Myxoid Liposarcoma, Attenuates Cell Adhesion Ability through Down-Regulation of Integrin α5β1. (2011)
  • Author(s): Kurokawa, R.
  • Organizer: ENDO (The Endocrine Society) 2011
  • Place of Presentation: Boston, USA.
  • Year and Date: 2011-06-06
• [Presentation] TLS-CHOP, an Oncogenic Fusion Product in Myxoid Liposarcoma, Attenuates Cell Adhesion Ability through Down-Regulation of Integrin α5β1 (2011)
  • Author(s): Arai, S
  • Organizer: ENDO (The Endocrine Society) 2011
  • Place of Presentation: Boston Convention & Exhibition Center (Boston, USA)
  • Year and Date: 2011-06-06
• [Presentation] 転写研究の過去、現在、そして未来-核内受容体応答配列から非コードRNAまで- (2011)
  • Author(s): 黒川理樹
  • Organizer: 第10回がんとホルモンセミナ
  • Place of Presentation: 東京大学山上会館(東京都)
  • Year and Date: 2011-01-20
• [Presentation] 粘液型脂肪肉腫原因遺伝子TLS-CHOP 発現細胞の構築と SUMO-1 修飾の解析 (2010)
  • Author(s): 黒川 理樹
  • Organizer: 第33回日本分子生物学会年会
  • Place of Presentation: 兵庫県兵庫市
  • Year and Date: 2010-12-09
• [Presentation] shRNA とエネルギーエロクアンス (2010)
  • Author(s): 黒川 理樹
  • Organizer: 第31回日本肥満学会
  • Place of Presentation: 群馬県前橋市
  • Year and Date: 2010-10-01
• [Presentation] RNA 結合タンパク質 TLS/FUSによる非コード RNA 依存性転写抑制機構-筋萎縮性側索硬化症(ALS)の新規原因遺伝子 TLS/FUS- (2010)
  • Author(s): 黒川 理樹
  • Organizer: 厚生労働科学研究費補助金 難治性疾患克服研究事業「筋萎縮性側索硬化症の病態に基づく画期的治療法の開発」班のワークショップ
  • Place of Presentation: 東京都千代田区
  • Year and Date: 2010-06-08
• [Presentation] Noncoding RNA from cyclin D1 promoter regulates transcription via its binding to TLS, a novel causative gene for ALS. (2010)
  • Author(s): Kurokawa, R
  • Organizer: 独立行政法人理化学研究所脳科学総合研究センターセミナー
  • Place of Presentation: 埼玉県和光市
  • Year and Date: 2010-04-15
• [Presentation] Noncoding RNA from cyclin D1 promoter regulates transcription via its binding to TLS, a novel causative gene for ALS. (2010)
  • Author(s): Kurokawa, R.
  • Organizer: 独立行政法人理化学研究所 脳科学総合研究センターセミナー
  • Place of Presentation: 理化学研究所(埼玉県)
  • Year and Date: 2010-04-15
• [Book] Generation of Functional Long Noncoding RNA Through Transcription and Natural Selection. (2012)
  • Author(s): Kurokawa, R
  • Publisher: Springer Berlin Heidelberg
• [Book] Promoter-Associated Noncoding RNA from the CCND1 Promoter. In: Vancura, A. (ed) Transcriptional Regulation: Methods and Protocols, Methods in Molecular Biology 809, Chapter 39 (2012)
  • Author(s): Song, X., Wang, X., Arai, S., and Kurokawa, R.
  • Publisher: Springer New York
• [Book] Transcriptional Regulation.Promoter-Associated Noncoding RNA from the CCND1 Promoter.In : Vancura, A.(ed) (2012)
  • Author(s): Song, X
  • Publisher: Humana Press
• [Book] Promoter-Associated Long Noncoding RNAs Repress Transcription Through a RNA Binding Protein TLS. In: Collins, L.J. (ed) RNA Infrastructure and Networks: Advances in Experimental Medicine and Biology 722, Chapter 12 (2011)
  • Author(s): Kurokawa, R.
  • Publisher: Springer New York
• [Book] RNA Infrastructure and Networks.Promoter-Associated Long Noncoding RNAs Repress Transcript ion Through an Rna Binding Protein TLS.In : Collins, LJ.(ed) (2011)
  • Author(s): Kurokawa, R
  • Publisher: Landes Biosciences
• [Book] RNA Infrastructure and Networks.-Promoter-Associated Long Noncoding RNAs Repress Transcription Through an Rna Binding Protein TLS(In : Collins, LJ.(ed)) (2011)
  • Author(s): Kurokawa, R.
  • Publisher: Landes Biosciences(in press)
• [Remarks]
  • URL: http://www.saitama-med.ac.jp/genome/
• [Remarks] 埼玉医科大学ゲノム医学研究センター
  • URL: http://www.saitama-med.ac.jp/genome/
• [Remarks] 埼玉医科大学ゲノム医学研究センター遺伝子構造機能部門
  • URL: http://space.geocities.jp/idensikouzou/index.html
• [Remarks]
  • URL: http://space.geocities.jp/idensikouzou/indcx.html
• [Remarks]
  • URL: http://space.geocities.jp/idensikouzou/index.html
• [Patent(Industrial Property Rights)] 抗 TLS モノクローナル抗体及びその製造方法、ハイブリドーマ及びその製造方法、並びに抗 TLS モノクローナル抗体含有組成物 (2013)
  • Inventor(s): 黒川 理樹
  • Industrial Property Rights Holder: 黒川 理樹
  • Industrial Property Number: 2013-099962
  • Filing Date: 2013-05-10
• [Patent(Industrial Property Rights)] 抗ＴＬＳモノクローナル抗体及びその製造方法、ハイブリドーマ及びその製造方法、並びに抗ＴＬＳモノクローナル抗体含有組成物 (2013)
  • Inventor(s): 黒川 理樹
  • Industrial Property Rights Holder: 黒川 理樹
  • Industrial Property Rights Type: 特許
  • Industrial Property Number: 2013-099962
  • Filing Date: 2013-05-10