Fathoming the evolution of gene regulation through an 'arms race' between transposons and Argonautes

2012 Fiscal Year Final Research Report

• Project/Area Number: 20221008
• Research Category: Grant-in-Aid for Scientific Research (S)
• Allocation Type: Single-year Grants
• Research Field: 基礎ゲノム科学
• Research Institution: Keio University
• Principal Investigator: SIOMI Haruhiko 慶應義塾大学, 医学部, 教授 (60202107)
• Project Period (FY): 2008 – 2012
• Keywords: ゲノム機能 / RNAサイレンシング

Research Abstract

To test the hypothesis that the arms race between transposable elements (TEs) and hosts leads to positive selection for cellular defense mechanisms, parts of which are co-opted for evolving new regulatory circuits, we have elucidated RNA silencing pathway

Research Products

• [Journal Article] Structure andfunction of Zucchini endoribonuclease in piRNA biogenesis. (2012)
  • Author(s): Nishimasu, H., Ishizu, H., Saito, K., Fukuhara, S., Kamatani, MK., Matsumoto, N., Nishizawa, T., Bonnefond, L., Nakanaga, K., Aoki, J., Ishitani, R., Siomi, H., Siomi, MC., and Nureki, O
  • Journal Title: Nature Volume: 491 Pages: 284-287
  • Peer Reviewed
• [Journal Article] Maelstrom coordinates microtubule organization during Drosophila oogenesis through interaction with components of the MTOC. (2011)
  • Author(s): Sato, K., Nishida, K.M., Shibuya, A., Siomi, M.C., and Siomi, H
  • Journal Title: Genes & Development Volume: 25 Pages: 2361-2371
  • Peer Reviewed
• [Journal Article] Chromatin-associated RNAi components contribute to transcriptional regulation in Drosophila. (2011)
  • Author(s): Cernilogar, F.M., Onorati, M.C., Kothe, G.O., Burroughs, A.M., Parsi, K.M., Breiling, A., lo Sardo, F., Saxena, A., Miyoshi, K., Siomi, H., Siomi, M.C., Carninci, P., Gilmour, D.S., Corona, D.F.V., and Orlando, V.
  • Journal Title: Nature Volume: 480 Pages: 391-395
  • Peer Reviewed
• [Journal Article] Roles for the Yb body components Armitage and Yb in primary piRNA biogenesis in Drosophila (2010)
  • Author(s): Saito, K., Ishizu, H., Komai, M., Kotani, H., Kawamura, Y., Nishida, KM., Siomi, H., and Siomi, MC.
  • Journal Title: Genes & Development Volume: 24 Pages: 2493-2498
  • Peer Reviewed
• [Journal Article] Biogenesis pathways of piRNAs loaded onto AGO3 in the Drosophila. (2010)
  • Author(s): Nagao, A., Mituyama, T., Huang, H., Chen, D., Siomi, MC., Siomi, H
  • Journal Title: RNA Volume: 16 Pages: 2503-2515
  • Peer Reviewed
• [Journal Article] A direct role of Hsp90 in pre-RISC formation in Drosophila (2010)
  • Author(s): Miyoshi, T., Takeuchi, A., Siomi, H. and Siomi, M.C.
  • Journal Title: Nature Structural and Molecular Biology Volume: 17 Pages: 1024-1026
  • Peer Reviewed
• [Journal Article] On the road to reading the RNA interference code (2009)
  • Author(s): Siomi, H., and Siomi, MC.
  • Journal Title: Nature Volume: 457 Pages: 396-404
  • Peer Reviewed
• [Journal Article] A regulatory circuit for piwi by traffic jam, a large Maf, in Drosophila gonadal somas (2009)
  • Author(s): Saito, K., Inagaki, S., Mituyama, T., Kawamura, Y., Ono, Y., Sakota, E., Kotani, H., Asai, K., Siomi H. and Siomi, MC
  • Journal Title: Nature Volume: 461 Pages: 1296-1299
  • Peer Reviewed
• [Journal Article] Drosophilaendogenous small RNAs bind to Argonaute2 in somatic cells (2008)
  • Author(s): Kawamura, Y., Saito, K., Kin, T., Ono, Y., Asai, K., Sunohara, T., Okada, NT., Siomi MC. and Siomi, H.
  • Journal Title: Nature Volume: 453 Pages: 793-797
  • Peer Reviewed
• [Journal Article] Roles of R2D2, a cytoplasmic D2 body component, in the endogenous siRNA pathway in Drosophila.
  • Author(s): Nishida, KM., Miyoshi, K., Ogino, A., Miyoshi, T., Siomi, H. and Siomi, MC.
  • Journal Title: Mol Cell Volume: 49 Pages: 6
  • Peer Reviewed
• [Presentation] piRNA biogenesis in the Drosophila ovary. (2012)
  • Author(s): H. Siomi
  • Organizer: Cell Symposia: Functional RNAs
  • Place of Presentation: Sitges, Spain
  • Year and Date: 20121202-04
• [Presentation] piRNA biogenesis in the Drosophila ovary (2012)
  • Author(s): H. Siomi
  • Organizer: 63^<rd> Fujihara Seminar, "A new horizon of retroposon research"
  • Place of Presentation: Kyoto
  • Year and Date: 20120731-0803
• [Presentation] Somatic piRNA biogenesis. (2012)
  • Author(s): H. Siomi
  • Organizer: The 3^<rd>Shanghai International Conference of Epigenetics in Development and Diseases/The 7^<th> Annual Conference of Asian Epigenome Alliance/Genome Medicine Workshop on Epigenetic (-moic)s in Diseases
  • Place of Presentation: Shanghai, China
  • Year and Date: 20120419-22
• [Presentation] a piRNA gene required for MTOC formation in the Drosophila oogenesis. CGC/CBG meeting Epigenetics and non-coding RNAs (2011)
  • Author(s): H. Siomi.
  • Organizer: Koninklijk Instituut voor de Tropen
  • Place of Presentation: Amsterdam
  • Year and Date: 20111110-11
• [Presentation] Endo-siRNA production and somatic silencing of transposons (2010)
  • Author(s): H. Siomi
  • Organizer: International symposium on Control of Gene Expression and Cancer, dedicated to the 20th anniversary of the Institute of Gene Biology, Russian Academy of Sciences
  • Place of Presentation: Moscow, Russia
  • Year and Date: 20100621-25
• [Presentation] piRNA-mediated transposon silencing. Plenary Lecture (2010)
  • Author(s): H. Siomi
  • Organizer: RNA Symposium 2010 (the 3rd RNA molecular Biology meeting of Taiwan)
  • Place of Presentation: National Cheng Kung University, Tainan, Taiwan
  • Year and Date: 20100208-09
• [Presentation] piRNA biogenesis in the Drosophila ovarian somatic cells. (2010)
  • Author(s): H. Siomi
  • Organizer: Memorial Sloan-Kettering Cancer Institute
  • Place of Presentation: New York
  • Year and Date: 2010-11-04
• [Presentation] piRNA biogenesis in the Drosophila ovary (2010)
  • Author(s): H. Siomi
  • Organizer: The New York Academy of Sciences, " Piwi-interacting RNAs (piRNAs), the guardians of the germ-line stem cell genome - Biogenesis and Function-
  • Place of Presentation: New York
  • Year and Date: 2010-11-03
• [Presentation] How are piRNAs produced in the Drosophila ovary? (2010)
  • Author(s): H. Siomi
  • Organizer: "Bingzhi Forum"speaker at Institute of Zoology, Chinese Academy of Sciences
  • Place of Presentation: Beijing, China
  • Year and Date: 2010-06-15
• [Presentation] Biochemical characterizations of piRNA genesis (2010)
  • Author(s): H. Siomi
  • Organizer: Genetics Seminar Program
  • Place of Presentation: Yale University School of Medicine, New Haven
  • Year and Date: 2010-01-12
• [Book] PIWI proteins and their Slicer activity in piRNA biogenesis and transposon silencing. The Enzymes Vol. 32: Part B: RNA endonucleases in RNAi and microRNA metabolism and their partners (2012)
  • Author(s): Sato, K., and Siomi, H(eds., F. Tamanoi, F. Guo, and G. Chanfreau)
  • Total Pages: 137-162
  • Publisher: Elsevier
• [Book] Biochemical analyses of endogenous Argonaute complexes immunopurified with anti-Argonaute monoclonal antibodies. Methods in Molecular Biology 725, Argonaute Proteins: Methods and Protocols (2011)
  • Author(s): Miyoshi, K., Okada, T., Siomi, H. and Siomi, MC.
  • Total Pages: 29-43
• [Book] The key features of RNA silencing. pp1-28. In RNA Technologies and Their Applications (2010)
  • Author(s): Saito, K., Miyoshi, K., Siomi, MC., and Siomi, H(eds., V. Erdmann and J. Barciszewski)
  • Total Pages: 1-28
  • Publisher: Springer-Verlag Berlin Heidelberg
• [Book] How to define targets for small guide RNAs in RNA silencing: a biochemical approach. Methods in Enzymology (2008)
  • Author(s): Siomi, MC., Nishida, KM., and Siomi, H.
  • Total Pages: 345-355
• [Book] In vitroRNA cleavage assay for Argonaute-family proteins. Methods in Molecular Biology (2008)
  • Author(s): Miyoshi, K., Uejima, H., Nagami, T., Siomi, H., and Siomi, MC
  • Total Pages: 29-43
• [Remarks]
  • URL: http://www.siomilab.med.keio.ac.jp/