研究成果(平成23年度)
泊 幸秀
The N domain of Argonaute drives duplex unwinding during RISC assembly.
Kwak PB, *Tomari Y.
Nat Struct Mol Biol. 2012 Jan 10. [Epub ahead of print]
[Pubmed]
A role for transcription from a piRNA cluster in de novo piRNA production
Kawaoka S, Mitsutake H, Kiuchi T, Kobayashi M, Yoshikawa M, Suzuki Y, Sugano S, Shimada T, *Kobayashi J,*Tomari Y,* Katsuma S.
RNA. 2011 Dec 22. [Epub ahead of print]
[Pubmed]
Dicer is dispensable for asymmetric RISC loading in mammals.
Juan G. B and *Tomari Y.
RNA. 2011 Jan;18(1):24-30. Epub 2011 Nov 21.
[Pubmed]
PABP is not essential for microRNA-mediated translational repression and deadenylation in vitro.
Fukaya T and *Tomari Y.
EMBO J. 2011 Nov 25;30(24):4998-5009.
[Pubmed]
Recognition of the pre-miRNA structure by Drosophila Dicer-1
Tsutsumi A, Kawamata T, Izumi N, Seitz H, *Tomari Y.
Nature Structural & Molecular Biology. 2011 Sep 18;18(10):1153-8.
[Pubmed]
3´end formation of PIWI-interacting RNAs in vitro
Kawaoka S, Izumi N, *Katsuma S,*Tomari Y.
Mol Cell. 2011 Sep 16;43(6):1015-22.
[Pubmed]
Multilayer checkpoints for microRNA authenticity during RISC assembly.
Kawamata T, Yoda M, *Tomari Y.
EMBO Rep. 2011 Sep 1;12(9):944-9.
[Pubmed]
程 久美子
E-cadherin is transcriptionally activated via suppression of ZEB1 transcriptional repressor by small RNA-mediated gene silencing.Mazda M, Nishi K, Naito Y, *Ui-Tei K.
PLoS ONE. 2011 Dec;6:e28688. Epub 2011 Dec 21.
[Pubmed] Enhanced specificity of HPV16 E6E7 siRNA by RNA-DNA chimera modification.
*Yamato K, Egawa N, Endo S, Ui-Tei K, Yamada T, Saigo K, Hyodo I, Kiyono T, Nakagawa I.
Cancer Gene Ther. 2011 Aug;18(8):587-97. Epub 2011 Jun 10.
[Pubmed] LacdiNAc (GalNAcβ1-4GlcNAc) contributes to self-renewal of mouse embryonic stem cells by regulating leukemia inhibitory factor/STAT3 signaling.
Sasaki N, Shinomi M, Hirano K, Ui-Tei K, *Nishihara S.
Stem Cells. 2011 Apr;29(4):641-50.
[Pubmed]
山下 暁朗
Integrated regulation of PIKK-mediated stress responses by AAA+ proteins RUVBL1 and RUVBL2.
Izumi N, *Yamashita A, *Ohno S.
Nucleus. 2012 Jan 1;3(1). [Epub ahead of print]
[Pubmed]
Mutations in POLR3A and POLR3B encoding RNA polymerase III subunits cause an autosomal-recessive hypomyelinating leukoencephalopathy
*Saitsu H, Osaka H, Sasaki M, Takanashi J, Hamada K, Yamashita A, Shibayama H, Shiina M, Kondo Y, Nishiyama K, Tsurusaki Y, Miyake N, Doi H,
Kazuhiro O, Inoue K, *Matsumoto N.
Am J Hum Genet. 2011 Nov 11;89(5):644-51. Epub 2011 Oct 27.
[Pubmed]
Heat shock protein 90 regulates phosphatidylinositol 3-kinase-related protein kinase family proteins together with the RUVBL1/2 and Tel2-containing co-factor complex.
Izumi N, *Yamashita A, Hiano H, *Ohno S.
Cancer Sci. 2011 Sep 23. [Epub ahead of print]
[Pubmed]
N-and C-terminal Upf1 phosphorylations create binding platforms for SMG-6 and SMG-5:SMG-7 during NMD.
Okada-Katsuhata Y,*Yamashita A, Kutsuzawa K, Izumi N, Hirahara F, *Ohno S.
Nucleic Acids Res. 2011 Sep 29. [Epub ahead of print]
[Pubmed]
A novel role for hSMG-1 in stress granule formation.
Brown JA, Roberts TL, Richards R, Woods R, Birrell G, Lim YC, Ohno S, Yamashita A, Abraham RT, Gueven N, *Lavin MF.
Mol Cell Biol. 2011 Nov;31(22):4417-29. Epub 2011 Sep 12.
[Pubmed]
佐渡 敬
Role for piRNAs and non-coding RNA in de novo DNA methylation of the imprinted mouse Rasgrf1 locus.
Watanabe T, Tomizawa S, Mitsuya K, Totoki Y, Yamamoto Y, Kuramochi-Miyagawa S, Iida N, Hoki Y, Murphy PJ, Toyoda A, Gotoh K, Hiura H, Arima T, Fujiyama A, Sado T, Shibata T, Nakano T, Lin H, Ichiyanagi K, Soloway PD, Sasaki H.
Science. 2011 May 13;332(6031):848-52.
[Pubmed]
Incomplete X-inactivation initiated by a hypomorphic Xist allele in the mouse.
Hoki Y, Ikeda R, Mise N, Sakata Y, Ohhata O, Sasaki H, Abe K, Sado T.
Development. 2011 Jul;138(13):2649-59. Epub 2011 May 25.
[Pubmed]
中澤 敬信
Metaplasticity gated through differential regulation of GluN2A versus GluN2B receptors by Src family kinases.
Yang K, Trepanier C, Sidhu B, Xie YF, Li H, Lei G, Salter MW, Nakazawa T, Yamamoto T, Jackson MF, *MacDonald JF.
EMBO J. 2011 in press
NYAP: a phosphoprotein family that links PI3K to WAVE1 signaling in neurons.
Yokoyama K, Tezuka T, Kotani M, Nakazawa T, Hoshina N, Shimoda Y, Kakuta S, Sudo K, Watanabe K, Iwakura Y, *Yamamoto T.
EMBO J. 2011 in press
Distinct expression patterns of the subunits of the CCR4-NOT deadenylase complex during neural development.
Chen C, Ito K, Takahashi A, Wang G, Suzuki T, Nakazawa T, *Yamamoto T, *Yokoyama K.
Biochem Biophys Res Commun. 2011 Jul 29;411(2):360-4. Epub 2011 Jun 28.
[Pubmed]
Involvement of spinal phosphorylation cascade of Tyr1472-NR2B, Thr286-CaMKII, and Ser831-GluR1 in neuropathic pain.
Katano T, Nakazawa T, Nakatsuka T, Watanabe M, Yamamoto T, *Ito S.
Neuropharmacol. 2011 Mar;60(4):609-16. Epub 2010 Dec 16.
[Pubmed]
中川 真一
Competition between a noncoding exon and introns: Gomafu contains tandem
UACUAAC repeats and associates with splicing factor-1.
Tsuiji H, Yoshimoto R, Hasegawa Y, Furuno M, Yoshida M,*Nakagawa S.
Genes Cells. 2011 May;16(5):479-90.Epub 2011 Apr 4.
[Pubmed]
eXIST with matrix-associated proteins.
*Nakagawa S, Prasanth KV.
Trends Cell Biol. 2011 Jun;21(6):321-7. Epub 2011 Mar 9.
[Pubmed]
Paraspeckles are subpopulation-specific nuclear bodies that are not essential in mice.
*Nakagawa S, Naganuma T, Shioi G, Hirose T.
J Cell Biol. 2011 Apr 4;193(1):31-9. Epub 2011 Mar 28.
[Pubmed]
勝間 進
A role for transcription from a piRNA cluster in de novo piRNA production
Kawaoka S, Mitsutake H, Kiuchi T, Kobayashi M, Yoshikawa M, Suzuki Y, Sugano S, Shimada T, *Kobayashi J,*Tomari Y,* Katsuma S.
RNA. 2011 Dec 22. [Epub ahead of print]
[Pubmed]
The silkworm W chromosome is a source of female-enriched piRNAs.
Kawaoka S, Kadota K, Arai Y, Suzuki Y, Fujii T, Abe H, Yasukochi Y, Mita K, Sugano S,Simizu K, Tomari Y, Shimada S, *Katsuma S.
RNA. 2011 Dec;17(12):2144-51.Epub 2011 Oct 21.
[Pubmed]
3´end formation of PIWI-interacting RNAs in vitro
Kawaoka S, Izumi N, *Katsuma S,*Tomari Y.
Mol Cell. 2011 Sep 16;43(6):1015-22.
[Pubmed]
Zygotic amplification of secondary piRNAs during silkworm embryogenesis.
Kawaoka S, Arai Y, Kadota K, Suzuki Y, Hara K, Sugano S, Shimizu K, Tomari Y, Shimada T, *Katsuma S.
RNA. 2011 Jul;17(7):1401-7. Epub 2011 May 31
[Pubmed]
神武 洋二郎
Up-regulation of Cks1 and Skp2 with TNFα/NF-κB Signaling in Chronic Progressive Nephropathy.
Suzuki S, Fukasawa H, Misaki T, Togawa A, Ohashi N, Kitagawa K, Kotake Y, Niida H, Hishida A, Yamamoto T and *Kitagawa M.
Genes Cells. 2011 in press.
Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters.
Hung T, Wang Y, Lin MF, Koegel AK, Kotake Y, Grant DG, Horlings HM, Shah N, Umbricht C, Wang P, Wang Y, Kong B, Langerod A, Borresen-Dale AL, Kim SK, van de Vijver M, Sukumar S, Whitfield ML, Kellis M, Xiong Y, *Wong DJ and *Chang HY.
Nat Genet. 2011 Jun 5;43(7):621-9.
[Pubmed]
Long non-coding RNA ANRIL is required for the PRC2 recruitment to and silencing of p15(INK4B) tumor suppressor gene.
Kotake Y, Nakagawa T, Kitagawa K, Suzuki S, Liu N, *Kitagawa M, *Xiong Y.
Oncogene. 2011 Apr 21;30(16):1956-62. Epub 2010 Dec 13
[Pubmed]
p53 binds to and is required for the repression of Arf tumor suppressor by HDAC and polycomb.
Zeng Y, Kotake Y, Pei XH, Smith MD, *Xiong Y.
Cancer Res. 2011 Apr 1;71(7):2781-92. Epub 2011 Mar 29
[Pubmed]
三嶋 雄一郎
Translational inhibition by deadenylation-independent mechanisms is central to microRNA-mediated silencing in zebrafish
*Mishima Y, Fukao A, Kishimioto T, Sakamoto H, Fujiwara T, *Inoue K.
Proc.Natl.Acad.Sci.USA. 2012 Jan 9. [Epub ahead of print]
[Pubmed]
Widespread roles of microRNAs during zebrafish development and beyond.
*Mishima Y.
Dev Growth Differ. 2011 Dec 12. [Epub ahead of print]
[Pubmed]
藤原 俊伸
Translational inhibition by deadenylation-independent mechanisms is central to microRNA-mediated silencing in zebrafish
*Mishima Y, Fukao A, Kishimioto T, Sakamoto H, Fujiwara T, *Inoue K.
Proc.Natl.Acad.Sci.USA. 2012 Jan 9. [Epub ahead of print]
[Pubmed]
Functional and direct interaction between the RNA binding protein HuD and active Akt1.
*Fujiwara T, Fukao A, Sasano Y,Matsuzaki H, Kikkawa U, Imataka H, Inoue K, Endo S, Sonenberg N, *Thoma C, *Sakamoto H.
Nucleic Acids Res. 2011 Nov 10. [Epub ahead of print]
[Pubmed]
Mechanisms of translational regulation by a human eIF5-mimic protein.
Singh CR, Watanabe R, Zhou D, Jennings MD, Fukao A, Lee B, Ikeda Y,
Chiorini JA, Campbell SG, Ashe MP, Fujiwara T, Wek RC, Pavitt GD, *Asano K.
Nucleic Acids Res. 2011 Oct 1;39(19):8314-28.
[Pubmed]
Microtubule association of a neuronal RNA-binding protein HuD through its binding to the light chain of MAP1B.
Fujiwara Y, Kasashima K, Saito K, Fukuda M, Fukao A, Sasano Y, Inoue K, *Fujiwara T, Sakamoto H.
Biochimie. 2011 May;93(5):817-22.
[Pubmed]
Single-embryo metabolomics and systematic prediction of developmental stage in zebrafish.
Hayashi S, Yoshida M, Fujiwara T, Maegawa S, Fukusaki E.
Z Naturforsch C. 2011 Mar-Apr;66(3-4):191-8.
[Pubmed]
研究成果(平成22年度)
泊 幸秀
Hsc70/Hsp90 chaperone machinery mediates ATP-dependent RISC loading of small RNA duplexes.
Iwasaki S, Kobayashi M, Yoda M, Sakaguchi Y, Katsuma S, Suzuki T, *Tomari Y.
Mol Cell. 2010 Jul 30;39(2):292-299. Epub 2010 Jun 3.
[Pubmed] [Press release] [Preview]
Making RISC.
Kawamata T, *Tomari Y.
Trends Biochem Sci. 2010 Jul;35(7):368-76.
[Pubmed]
程 久美子
Robust and photocontrollable DNA capsules using azobenzenes.Tanaka F, Mochizuki T, Liang X, Asanuma H, Tanaka S, Suzuki K, Kitamura S, Nishikawa A, Ui-Tei K, *Hagiya M.
Nano Lett. 2010 Sep 8;10(9):3560-5.
[Pubmed] Sunspot, a link between Wingless signaling and endoreplication in Drosophila.
Taniue K, Nishida A, Hamada F, Sugie A, Oda T, Ui-Tei K, Tabata T, *Akiyama T.
Development. 2010 May;137(10):1755-64.
[Pubmed]
佐渡 敬
Impeding Xist Expression from the Active X Chromosome Improves Mouse Somatic Cell Nuclear Transfer.
Inoue K, Kohda T, Sugimoto M, Sado T, Ogonuki N, Matoba S, Shiura H, Ikeda R, Mochida K, Fujii T, Sawai K, Otte AP, Tian XC, Yang X, Ishino F, Abe K, *Ogura A.
Science. 2010 Oct 22;330(6003):496-9. Epub 2010 Sep 16.
[Pubmed]
MITOPLD is a mitochondrial protein essential for nuage formation and piRNA biogenesis in the mouse germline.
*Watanabe T, Chuma S, Yamamoto Y, Kuramochi-Miyagawa S, Totoki Y, Toyoda A, Hoki Y, Fujiyama A, Shibata T, Sado T, Noce T, Nakano T, Nakatsuji N, Lin H, *Sasaki H.
Dev Cell. 2011 Mar 15;20(3):364-75.
[Pubmed]
中澤 敬信
NMDAR2B tyrosine phosphorylation regulates anxiety-like behavior and CRF expression in the amygdala.
Delawary M, Tezuka T, Kiyama Y, Yokoyama K, Inoue T, Hattori S, Hashimoto R, Umemori H, Manabe T, Yamamoto T, *Nakazawa T.
Mol Brain. 2010 Nov 30;3(1):37.
[Pubmed]
Receptor tyrosine phosphatase sigma (RPTPσ) regulates, p250GAP, a novel substrate that attenuates Rac signaling.
Chagnon MJ, Wu CL, Nakazawa T, Yamamoto T, Noda M, Blanchetot C, *Tremblay ML.
Cell Signal. 2010 Nov;22(11):1626-33. Epub 2010 Jun 12.
[Pubmed]
Impairment of CaMKII activation and attenuation of neuropathic pain in mice lacking NR2B phosphorylated at Tyr1472.
Matsumura S, Kunori S, Mabuchi T, Katano T, Abe T, Nakazawa T, Yamamoto T, Ashitaka-Okuda E, *Ito S.
Eur J Neurosci. 2010 Sep;32(5):798-810. Epub 2010 Aug 16.
[Pubmed]
宮川(倉持) さとみ
MVH in piRNA processing and gene silencing of retrotransposons.
*Kuramochi-Miyagawa S, Watanabe T, Gotoh K, Takamatsu K, Chuma S, Kojima-Kita K, Shiromoto Y, Asada N, Toyoda A, Fujiyama A, Totoki Y, Shibata T, Kimura T, Nakatsuji N, Noce T, Sasaki H, *Nakano T.
Genes Dev. 2010 May;24(9):887-92.
[Pubmed]
影山 裕二
Small peptides switch the transcriptional activity of Shavenbaby during Drosophila embryogenesis.
Kondo T, Plaza S, Zanet J, Benrabah E, Valenti P, Hashimoto Y, Kobayashi S, *Payre F, *Kageyama Y.
Science. 2010 Jul 16;329(5989):336-9.
[Pubmed] [Press release] [Preview]
竹下 文隆
Secretory mechanisms and intercellular transfer of microRNAs in living cells.
Kosaka N, Iguchi H, Yoshioka Y, Takeshita F, Matsuki Y, *Ochiya T.
J Biol Chem. 2010 Jun 4;285(23):17442-52.
[Pubmed]
Combined functional genome survey of therapeutic targets for hepatocellular carcinoma.
Satow R, Shitashige M, Kanai Y, Takeshita F, Ojima H, Jigami T, Honda K, Kosuge T, Ochiya T, Hirohashi S, *Yamada T.
Clin Cancer Res. 2010 May 1;16(9):2518-28.
[Pubmed]
中川 真一
The Matrix Protein hnRNP U Is Required for Chromosomal Localization of Xist
RNA.
Hasegawa Y, Brockdorff N, Kawano S, Tsutui K, Tsutui K, *Nakagawa S.
Dev Cell. 2010 Sep 14;19(3):469-76.
[Pubmed]
小林 慎
The X-linked imprinted gene family Fth117 shows predonantly female expression following the two-cell stage in mouse embryos.
*Kobayashi S, Fujihara Y, Mise N, Kaseda K, Abe K, Ishino F, Okabe M.
Nucleic Acids Res. 2010 Jun 1;38(11):3672-81.
[Pubmed]
神武 洋二郎
GSK3 regulates the expressions of human and mouse c-Myb via different mechanisms.
Kitagawa K, Kotake Y, Hiramatsu Y, Liu N, Suzuki S, Nakamura S, Kikuchi A and *Kitagawa M.
Cell Div. 2010 Nov 21;5:27.
[Pubmed]
NFAT5 regulates transcription of the mouse telomerase reverse transcriptase gene.
Fujiki T, Udono M, Kotake Y, Yamashita M, Shirahata S and *Katakura Y.
Exp Cell Res. 2010 Dec 10;316(20):3342-50. Epub 2010 Oct 16.
[Pubmed]
三嶋 雄一郎
A novel miRNA processing pathway independent of Dicer requires Argonaute2 catalytic activity.
Cifuentes D, Xue H, Taylor DW, Patnode H, Mishima Y, Cheloufi S, Ma E, Mane S, Hannon GJ, Lawson ND, Wolfe SA, *Giraldez AJ.
Science. 2010 Jun 25;328(5986):1694-8.
[Pubmed]
藤原 俊伸
A small nucleolar RNA functions in rRNA processing in Caenorhabditis elegans.
Hokii Y, Sasano Y, Sato M, Sakamoto H, Sakata K, Shingai R,
Taneda A, Oka S, Himeno H, Muto A, *Fujiwara T, *Ushida C.
Nucleic Acids Res. 2010 Sep;38(17):5909-18. Epub 2010 May 11.
[Pubmed]
研究成果(平成21年度)
泊 幸秀
ATP-dependent human RISC assembly pathways.
Yoda M, Kawamata T, Paroo Z, Ye X, Iwasaki S, Liu Q, *Tomari Y.
Nature Structural & Molecular Biology.
2010 Jan;17(1):17-23.
[Pubmed]
[Press release]
Structural determinants of miRNAs for RISC loading and slicer-independent unwinding.
Kawamata T, Seitz H, *Tomari Y.
Nature Structural & Molecular Biology. 2009 Sep;16(9):953-60.
[Pubmed] [Press release]
程 久美子
siDirect 2.0: updated software for designing functional siRNA with
reduced seed-dependent off-target effect.
*Naito Y, Yoshimura J, Morishita S, *Ui-Tei K.
BMC Bioinformatics. 2009 Nov 30;10:392.
[Pubmed]
中澤 敬信
Involvement of NMDAR2A tyrosine phosphorylation in depression-related behavior.
Taniguchi T, *Nakazawa T, Tanimura A, Kiyama Y, Tezuka T, Watabe AM, Katayama N, Yokoyama K, Inoue T, Izumi-Nakaseko H, Kakuta S, Sudo K, Iwakura Y, Umemori H, Inoue T, Murphy NP, Hashimoto K, Kano M, Manabe T, Yamamoto T.
The EMBO Journal. 2009 Dec 2;28(23):3717-29. Epub 2009 Oct 15.
[Pubmed]
宮川(倉持) さとみ
Associations between PIWI proteins and TDRD1/MTR-1 are critical for
integrated subcellular localization in murine male germ cells.
Kojima K. *Kuramochi-Miyagawa S. Chuma S. Tanaka T. Nakatsuji N. Kimura
T. *Nakano T.
Genes Cells. 2009 Oct;14(10):1155-1165.
[Pubmed]
RNA silencing in germlines--exquisite collaboration of Argonaute
proteins with small RNAs for germline survival.
*Siomi MC. Kuramochi-Miyagawa S.
Curr Opin Cell Biol. 2009 Jun;21(3):426-34
[Pubmed]
The TDRD9-MIWI2 complex is essential for piRNA-mediated retrotransposon silencing in the mouse male germline.
Shoji M, Tanaka T, Hosokawa M, Reuter M, Stark A, Kato Y, Kondoh G, Okawa K, Chujo T, Suzuki T, Hata K, Martin SL, Noce T, Kuramochi-Miyagawa S, Nakano T, Sasaki H, Pillai RS, Nakatsuji N, *Chuma S.
Dev Cell. 2009 Dec;17(6):775-87
[Pubmed]
Gtsf1/Cue110, a gene encoding a protein with two copies of a CHHC Zn-finger motif, is involved in spermatogenesis and retrotransposon suppression in murine testes
Yoshimura T. Toyoda S. Kuramochi-Miyagawa S. Miyazaki T. Miyazaki S. Tashiro F. Yamato E. Nakano T. *Miyazaki J.
Dev Biol. 2009 Nov 1;335(1):216-27
[Pubmed]
A broadly conserved pathway generates 3'UTR-directed primary piRNAs.
Robine N, *Lau NC, Balla S, Jin Z, Okamura K, Kuramochi-Miyagawa S, Blower MD, *Lai EC.
Curr Biol. 2009 Dec 29;19(24):2066-76
[Pubmed]
竹下 文隆
Systemic delivery of synthetic microRNA-16 inhibits the growth of metastatic prostate tumors via downregulation of multiple cell-cycle genes.
Takeshita F, Patrawala L, Osaki M, Takahashi RU, Yamamoto Y, Kosaka N, Kawamata M, Kelnar K, Bader AG, Brown D, *Ochiya T.
Mol Ther. 2010 Jan;18(1):181-7.
[Pubmed]
Mutant mouse p53 transgene elevates the chemical induction of tumors that respond to gene silencing with siRNA.
Tanooka H, Tatsumi K, Tsuji H, Noda Y, Katsube T, Ishii H, Ootsuyama A, Takeshita F, *Ochiya T.
Cancer Gene Ther. 2010 Jan;17(1):1-10.
[Pubmed]
Screening of potential molecular targets for colorectal cancer therapy.
Honma K, Takemasa I, Matoba R, Yamamoto Y, Takeshita F, Mori M, Monden M, Matsubara K, *Ochiya T.
Int J Gen Med. 2009 Dec 29;2:243-57.
[Pubmed]