Publications

Selected publications

  1. Hirose T, Ninomiya K, Nakagawa S, Yamazaki T. A guide to membraneless organelles and their various roles in gene regulation. Nat Rev Mol Cell Biol (2022).
  2. Ninomiya K, Iwakiri J, Aly MK, Sakaguchi Y, Adachi S, Natsume T, Terai G, Asai K, Suzuki T, Hirose T. m6A-modification of HSATIII lncRNAs regulates temperature-dependent splicing. EMBO J 40(15):e107976 (2021).
  3. Yamazaki T, Yamamoto T, Yoshino H, Souquere S, Nakagawa S, Pierron G, Hirose T. Paraspeckles are constructed as block copolymer micelles. EMBO J 40(12): e107270 (2021).
  4. Yamazaki T, Nakagawa S, Hirose T. Architectural RNAs for Membraneless Nuclear Body Formation. Cold Spring Harb Symp Quant Biol 039404 (2020).
  5. Ninomiya K, Adachi S, Natsume T, Iwakiri J, Terai G, Asai K, Hirose T. LncRNA-dependent nuclear stress bodies promote intron retention through SR protein phosphorylation. EMBO J 39: e102729 (2020).
  6. Yamazaki T, Souquere S, Chujo T, Kobelke S, Chong YS, Fox AH, Bond CS, Nakagawa S, Pierron G, Hirose T. Functional domains of NEAT1 architectural lncRNA induce paraspeckle assembly through phase separation. Mol Cell 70: 1038-1053 (2018).
  7. Chujo T, Yamazaki T, Kawaguchi T, Kurosaka S, Takumi T, Nakagawa S, Hirose T. Unusual semi-extractability as a hallmark of nuclear body-associated architectural noncoding RNAs. EMBO J 36: 1447-1462 (2017).
  8. Mannen T, Yamashita S, Tomita K, Goshima N, Hirose T. The Sam68 nuclear body is composed of two RNase-sensitive substructures joined by the adaptor HNRNPL. J Cell Biol 214: 45-59 (2016).
  9. Hennig S, Kong G, Mannen T, Sadowska A, Kobelke S, Blythe A, Knott GJ, Iyer KS, Ho D, Newcombe EA, Hosoki K, Goshima N, Kawaguchi T, Hatters D, Trinkle-Mulcahy L, Hirose T, Bond CS, Fox AH. Prion-like domains in RNA binding proteins are essential for building subnuclear paraspeckles. J Cell Biol 210: 529-539 (2015)
  10. Kawaguchi T, Tanigawa A, Naganuma T, Ohkawa Y, Souquere S, Pierron G, Hirose T. SWI/SNF chromatin-remodeling complexes function in noncoding RNA-dependent assembly of nuclear bodies. Proc Natl Acad Sci USA 112: 4304-4309 (2015).
  11. Hirose T, Virnicchi G, Tanigawa A, Naganuma T, Li R, Kimura H, Yokoi T, Nakagawa S, Bénard M, Fox A, Pierron G NEAT1 long noncoding RNA regulates transcription via protein sequestration within subnuclear bodies. Mol. Biol. Cell 25: 169-183 (2014).
  12. Naganuma T, Nakagawa S, Tanigawa A, Sasaki YF, Goshima N, Hirose T. Alternative 3′-end processing of long noncoding RNA initiates construction of nuclear paraspeckles. EMBO J 31: 4020-4034 (2012).
  13. Sasaki, Y.T., Ideue, T., Sano, M., Mitsuyama, T., Hirose T. MENɛ/β noncoding RNAs are structural integrator of the nuclear body, paraspeckle. Proc Natl Acad Sci USA 106: 2525-2530 (2009).
  14. Ideue, T., Sasaki, Y.T., Hagiwara, M., Hirose T. Introns play an essential role in splicing-dependent formation of the exon junction complex. Genes & Dev 21: 1993-1998 (2007).
  15. Hirose T, Ideue T, Nagai M, Hagiwara M, Shu M-D, Steitz JA A spliceosomal intron binding protein, IBP160, links position-dependent assembly of intron-encoded box C/D snoRNP to pre-mRNA splicing. Mol Cell 23: 673-684. (2006)
  16. Hirose T, Shu M-D, Steitz JA Splicing of U12-type introns deposits an exon junction complex competent to induce nonsense-mediated mRNA decay. Proc Natl Acad Sci USA 101: 17976-17981 (2004).
  17. Hirose T, Shu M-D., Steitz JA Splicing-dependent and independent modes of assembly for intron-encoded box C/D snoRNPs in mammalian cells. Mol Cell 12: 113-123 (2003)
  18. Hirose T, Steitz JA Positions within host intron is critical for efficient processing of box C/D snoRNAs in mammalian cell. Proc Natl Acad Sci USA 98: 12914-12919 (2001)
  19. Hirose T, Sugiura M Involvement of a site-specific trans-acting factor and a common RNA-binding protein in the editing of chloroplast mRNAs: development of a chloroplast in vitro RNA editing system. EMBO J, 20: 1144-1152 (2001).
  20. Hirose T, Sugiura M Both RNA editing and RNA cleavage are required for translation of tobacco chloroplast ndhD mRNA: a possible regulatory mechanism for the expression of a chloroplast operon consisting of functionally unrelated gene. EMBO J, 16: 6804-6811 (1997)
  21. Hirose T, Sugiura M Cis-acting elements and trans-acting factor(s) for accurate translation of tobacco psbA mRNA in chloroplasts; development of a chloroplast in vitro translation system. EMBO J, 15: 1687-1695 (1996).

Complete publication list

Complete publication list