研究業績

2024年

1. Mitoribosome structure with cofactors and modifications reveals mechanism of ligand binding and interactions with L1 stalk.(2024) Singh V, Itoh Y, Del'Olio S, Hassan A, Naschberger A, Flygaard RK, Nobe Y, Izumikawa K, Aibara S, Andréll J, Whitford PC, Barrientos A, Taoka M, Amunts A. Nature Communications. 15(1):4272. doi: 10.1038/s41467-024-48163-x.

2023年

1. Structure of mitoribosome reveals mechanism of mRNA binding, tRNA interactions with L1 stalk, roles of cofactors and rRNA modifications.(2023) Singh V, Itoh Y, Del'Olio S, Hassan A, Naschberger A, Flygaard RK, Nobe Y, Izumikawa K, Aibara S, Andréll J, Whitford PC, Barrientos A, Taoka M, Amunts A. bioRxiv. doi: 10.1101/2023.05.24.542018. Preprint
2. Alzheimer's Disease-Associated Alternative Splicing of CD33 Is Regulated by the HNRNPA Family Proteins. (2023) Komuro R, Honda Y, Yanaizu M, Nagahama M, Kino Y. Cells. 12(4):602. doi: 10.3390/cells12040602.
3. Brucella effectors NyxA and NyxB target SENP3 to modulate the subcellular localisation of nucleolar proteins.(2023) Louche A, Blanco A, Lacerda TLS, Cancade-Veyre L, Lionnet C, Bergé C, Rolando M, Lembo F, Borg JP, Buchrieser C, Nagahama M, Gérard FCA, Gorvel JP, Gueguen-Chaignon V, Terradot L, Salcedo SP. Nature Communications. 14(1):102. doi: 10.1038/s41467-022-35763-8.

2022年

1. MTR4 adaptor PICT1 functions in two distinct steps during pre-rRNA processing.(2022) Miyao S, Saito K, Oshima R, Kawahara K, Nagahama M. Biochem Biophys Res Commun. 637:203-209. doi: 10.1016/j.bbrc.2022.11.018.
2. MPP6 stimulates both RRP6 and DIS3 to degrade a specified subset of MTR4-sensitive substrates in the human nucleus. (2022) Fujiwara N, Shigemoto M, Hirayama M, Fujita KI, Seno S, Matsuda H, Nagahama M, Masuda S. Nucleic Acids Res. 50(15):8779-8806. doi: 10.1093/nar/gkac559.
3. TDP-43 regulates cholesterol biosynthesis by inhibiting sterol regulatory element-binding protein 2. (2022) Egawa N, Izumi Y, Suzuki H, Tsuge I, Fujita K, Shimano H, Izumikawa K, Takahashi N, Tsukita K, Enami T, Nakamura M, Watanabe A, Naitoh M, Suzuki S, Seki T, Kobayashi K, Toda T, Kaji R, Takahashi R, Inoue H. Sci Rep. 12:7988. doi: 10.1038/s41598-022-12133-4.

2021年

1. Interactome analysis of the Tudor domain-containing protein SPF30 which associates with the MTR4-exosome RNA-decay machinery under the regulation of AAA-ATPase NVL2. Ishida YI, Miyao S, Saito M, Hiraishi N, Nagahama M. (2021) Int J Biochem Cell Biol. 132:105919. doi: 10.1016/j.biocel.2021.105919.

2020年

1. Exploration of Salmonella effector mutant strains on MTR4 and RRP6 degradation. (2020) Sun X, Kawata K, Miki A, Wada Y, Nagahama M, Takaya A, Akimitsu N. Biosci Trends. 14:255-262. doi: 10.5582/bst.2020.03085.
2. A cellular model of albumin endocytosis uncovers a link between membrane and nuclear proteins. (2020) Urae S, Harita Y, Udagawa T, Ode KL, Nagahama M, Kajiho Y, Kanda S, Saito A, Ueda HR, Nangaku M, Oka A. J Cell Sci. 133:jcs242859. doi: 10.1242/jcs.242859.
3. Systematic Analysis of Targets of Pumilio-Mediated mRNA Decay Reveals that PUM1 Repression by DNA Damage Activates Translesion Synthesis. (2020) Yamada T, Imamachi N, Imamura K, Taniue K, Kawamura T, Suzuki Y, Nagahama M, Akimitsu N. Cell Rep. 31:107542. doi: 10.1016/j.celrep.2020.107542.

2019年

1. LYAR potentiates rRNA synthesis by recruiting BRD2/4 and the MYST-type acetyltransferase KAT7 to rDNA. (2019) Izumikawa K, Ishikawa H, Yoshikawa H, Fujiyama S, Watanabe A, Aburatani H, Tachikawa H, Hayano T, Miura Y, Isobe T, Simpson RJ, Li L, Min J, Takahashi N. Nucleic Acids Res. 47:10357-10372. doi: 10.1093/nar/gkz747.
2. TDP-43 regulates site-specific 2'-O-methylation of U1 and U2 snRNAs via controlling the Cajal body localization of a subset of C/D scaRNAs. (2019) Izumikawa K, Nobe Y, Ishikawa H, Yamauchi Y, Taoka M, Sato K, Nakayama H, Simpson RJ, Isobe T, Takahashi N. Nucleic Acids Res. 47:2487-2505. doi: 10.1093/nar/gkz086.
3. Distinct shed microvesicle and exosome microRNA signatures reveal diagnostic markers for colorectal cancer. (2019) Chen M, Xu R, Rai A, Suwakulsiri W, Izumikawa K, Ishikawa H, Greening DW, Takahashi N, Simpson RJ. PLoS One. 14:e0210003. doi: 10.1371/journal.pone.0210003.

2018年

1. Diminished nuclear RNA decay upon Salmonella infection upregulates antibacterial noncoding RNAs. (2018) Imamura K, Takaya A, Ishida YI, Fukuoka Y, Taya T, Nakaki R, Kakeda M, Imamachi N, Sato A, Yamada T, Onoguchi-Mizutani R, Akizuki G, Tanu T, Tao K, Miyao S, Suzuki Y, Nagahama M, Yamamoto T, Jensen TH, Akimitsu N. EMBO J. 37:e97723. doi: 10.15252/embj.201797723.
2. WDR74 participates in an early cleavage of the pre-rRNA processing pathway in cooperation with the nucleolar AAA-ATPase NVL2. (2018) Hiraishi N, Ishida YI, Sudo H, Nagahama M. Biochem Biophys Res Commun. 495:116-123. doi: 10.1016/j.bbrc.2017.10.148.
3. SAMMSON fosters cancer cell fitness by concertedly enhancing mitochondrial and cytosolic translation. (2018) Vendramin R, Verheyden Y, Ishikawa H, Goedert L, Nicolas E, Saraf K, Armaos A, Delli Ponti R, Izumikawa K, Mestdagh P, Lafontaine DLJ, Tartaglia GG, Takahashi N, Marine JC, Leucci E. Nat Struct Mol Biol. 25:1035-1046. doi: 10.1038/s41594-018-0143-4.
4. Landscape of the complete RNA chemical modifications in the human 80S ribosome. (2018) Taoka M, Nobe Y, Yamaki Y, Sato K, Ishikawa H, Izumikawa K, Yamauchi Y, Hirota K, Nakayama H, Takahashi N, Isobe T. Nucleic Acids Res. 46:9289-9298. doi: 10.1093/nar/gky811.
5. Truncated forms of U2 snRNA (U2-tfs) are shunted toward a novel uridylylation pathway that differs from the degradation pathway for U1-tfs. (2018) Ishikawa H, Nobe Y, Izumikawa K, Taoka M, Yamauchi Y, Nakayama H, Simpson RJ, Isobe T, Takahash N. RNA Biol. 15:261-268. doi: 10.1080/15476286.2017.1408766.
6. Modulating the expression of Chtop, a versatile regulator of gene-specific transcription and mRNA export. (2018) Izumikawa K, Ishikawa H, Simpson RJ, Takahashi N. RNA Biol. 15:849-855. doi: 10.1080/15476286.2018.1465795.

2017年

1. Peroxidatic cysteine residue of peroxiredoxin 2 separated from human red blood cells treated by tert-butyl hydroperoxide is hyperoxidized into sulfinic and sulfonic acids. (2017) Ishida YI, Aki M, Fujiwara S, Nagahama M, Ogasawara Y. Hum Cell. 30:279-289. doi: 10.1007/s13577-017-0171-0.
2. TDP-43 stabilises the processing intermediates of mitochondrial transcripts. (2017) Izumikawa K, Nobe Y, Yoshikawa H, Ishikawa H, Miura Y, Nakayama H, Nonaka T, Hasegawa M, Egawa N, Inoue H, Nishikawa K, Yamano K, Simpson RJ, Taoka M, Yamauchi Y, Isobe T, Takahashi N. Sci Rep. 7:7709. doi: 10.1038/s41598-017-06953-y.
3. Poly(A)-specific ribonuclease regulates the processing of small-subunit rRNAs in human cells. (2017) Ishikawa H, Yoshikawa H, Izumikawa K, Miura Y, Taoka M, Nobe Y, Yamauchi Y, Nakayama H, Simpson RJ, Isobe T, Takahashi N. Nucleic Acids Res. 45:3437-3447. doi: 10.1093/nar/gkw1047.

2016年

1. Interaction properties of human TRAMP-like proteins and their role in pre-rRNA 5'ETS turnover. (2016) Sudo H, Nozaki A, Uno H, Ishida Y, Nagahama M. FEBS Lett. 590:2963-72. doi: 10.1002/1873-3468.12314.
2. Transcriptome and long noncoding RNA sequencing of three extracellular vesicle subtypes released from the human colon cancer LIM1863 cell line. (2016) Chen M, Xu R, Ji H, Greening DW, Rai A, Izumikawa K, Ishikawa H, Takahashi N, Simpson RJ. Sci Rep. 6:38397. doi: 10.1038/srep38397.
3. Chtop (Chromatin target of Prmt1) auto-regulates its expression level via intron retention and nonsense-mediated decay of its own mRNA. (2016) Izumikawa K, Yoshikawa H, Ishikawa H, Nobe Y, Yamauchi Y, Philipsen S, Simpson RJ, Isobe T, Takahashi N. Nucleic Acids Res. 44:9847-9859. doi: 10.1093/nar/gkw831.
4. Structural insights into Gemin5-guided selection of pre-snRNAs for snRNP assembly. (2016) Xu C, Ishikawa H, Izumikawa K, Li L, He H, Nobe Y, Yamauchi Y, Shahjee HM, Wu XH, Yu YT, Isobe T, Takahashi N, Min J. Genes Dev. 30:2376-2390. doi: 10.1101/gad.288340.116.
5. Analysis of the Physiological Activities of Scd6 through Its Interaction with Hmt1. (2016) Lien PT, Izumikawa K, Muroi K, Irie K, Suda Y, Irie K. PLoS One. 11:e0164773. doi: 10.1371/journal.pone.0164773.
6. A mass spectrometry-based method for direct determination of pseudouridine in RNA. (2016) Yamauchi Y, Nobe Y, Izumikawa K, Higo D, Yamagishi Y, Takahashi N, Nakayama H, Isobe T, Taoka M. Nucleic Acids Res. 44:e59. doi: 10.1093/nar/gkv1462.