研究業績/ Publication

（* = corresponding author）

2025

CMTR1 directs mitochondrial dynamics during T cell activation through epitranscriptomic regulation of splice isoforms

Galloway A, Knop K, Gomez-Moreira C, Xavier V, Thomson S, Yoshikawa H, Suska O, Lukoszek R, Kaskar A, Lamond AI, MacVicar T, Cowling VH.

Cell Rep. 2025 Oct 13;44(10):116412. doi: 10.1016/j.celrep.2025.116412. PMID: 41091598.

2024

Sulfoxide‐Mediated Cys‐Trp‐Selective Bioconjugation that Enables Protein Labeling and Peptide Heterodimerization

Kobayashi D, Denda M, Hayashi J, Hidaka K, Kohmura Y, Tsunematsu T, Nishino K, Yoshikawa H, Ohkawachi K, Nigorikawa K, Yoshimaru T, Ishimaru N, Nomura W, Katagiri T, Kosako H, Otaka A.

Chemistry Europe 2024, 2, e202400014. https://doi.org/10.1002/ceur.202400014

Proteomic and functional comparison between human induced and embryonic stem cells

Brenes AJ, Griesser E, Sinclair LV, Davidson L, Prescott AR, Singh F, Hogg EKJ, Espejo-Serrano C, Jiang H, Yoshikawa H, Platani M, Swedlow JR, Findlay GM, Cantrell DA, Lamond AI.

eLife. 2024 Nov 14;13:RP92025. doi: 10.7554/eLife.92025. PMID: 39540879; PMCID: PMC11563575.

2023

An allele-selective inter-chromosomal protein bridge supports monogenic antigen expression in the African trypanosome 

Faria JRC, Tinti M, Marques CA, Zoltner M, Yoshikawa H, Field MC, Horn D. 

Nat Commun. 2023 Dec 11;14(1):8200. doi: 10.1038/s41467-023-44043-y. PMID: 38081826; PMCID: PMC10713589.

2022

Optimized Workflow for Enrichment and Identification of Biotinylated Peptides Using Tamavidin 2-REV for BioID and Cell Surface Proteomics.

Nishino K, Yoshikawa H (co-first), Motani K, Kosako H. 

J Proteome Res. 2022 Sep 2;21(9):2094-2103. doi: 10.1021/acs.jproteome.2c00130. Epub 2022 Aug 17. PMID: 35979633.

Binding of LAG-3 to stable peptide-MHC class II limits T cell function and suppresses autoimmunity and anti-cancer immunity.

Maruhashi T, Sugiura D, Okazaki IM, Shimizu K, Maeda TK, Ikubo J, Yoshikawa H, Maenaka K, Ishimaru N, Kosako H, Takemoto T, Okazaki T.

Immunity. 2022 May 10;55(5):912-924.e8. doi: 10.1016/j.immuni.2022.03.013. Epub 2022 Apr 11. PMID: 35413245.

Identification and validation of new ERK substrates by phosphoproteomic technologies including Phos-tag SDS-PAGE.

Yoshikawa H, Nishino K, Kosako H. 

J Proteomics. 2022 Apr 30;258:104543. doi: 10.1016/j.jprot.2022.104543. Epub 2022 Feb 26. PMID: 35231659.

Genetic variation at mouse and human ribosomal DNA influences associated epigenetic states.

Rodriguez-Algarra F, Seaborne RAE, Danson AF, Yildizoglu S, Yoshikawa H, Law PP, Ahmad Z, Maudsley VA, Brew A, Holmes N, Ochôa M, Hodgkinson A, Marzi SJ, Pradeepa MM, Loose M, Holland ML, Rakyan VK.

Genome Biol. 2022 Feb 14;23(1):54. doi: 10.1186/s13059-022-02617-x. PMID: 35164830; PMCID: PMC8842540.

2021

Efficient and Rapid Analysis of Polysomes and Ribosomal Subunits in Cells and Tissues Using Ribo Mega-SEC. 

Yoshikawa H*, Sundaramoorthy R, Mariyappa D, Jiang H, Lamond AI*. 

Bio Protoc. 2021 Aug 5;11(15):e4106. doi: 10.21769/BioProtoc.4106. PMID: 34458400; PMCID: PMC8376616.

Upregulation of RNA cap methyltransferase RNMT drives ribosome biogenesis during T cell activation.

Galloway A, Kaskar A, Ditsova D, Atrih A, Yoshikawa H, Gomez-Moreira C, Suska O, Warminski M, Grzela R, Lamond AI, Darzynkiewicz E, Jemielity J, Cowling VH.

Nucleic Acids Res. 2021 Jul 9;49(12):6722-6738. doi: 10.1093/nar/gkab465. PMID: 34125914; PMCID: PMC8266598.

Erosion of human X chromosome inactivation causes major remodeling of the iPSC proteome.

Brenes AJ, Yoshikawa H, Bensaddek D, Mirauta B, Seaton D, Hukelmann JL, Jiang H, Stegle O, Lamond AI.

Cell Rep. 2021 Apr 27;35(4):109032. doi: 10.1016/j.celrep.2021.109032. PMID: 33910018; PMCID: PMC8097692.

~2020

LYAR potentiates rRNA synthesis by recruiting BRD2/4 and the MYST-type acetyltransferase KAT7 to rDNA. 

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. 2019 Nov 4;47(19):10357-10372. doi: 10.1093/nar/gkz747. PMID: 31504794; PMCID: PMC6821171.

Efficient analysis of mammalian polysomes in cells and tissues using Ribo Mega-SEC.

Yoshikawa H, Larance M, Harney DJ, Sundaramoorthy R, Ly T, Owen-Hughes T, Lamond AI.

eLife. 2018 Aug 10;7:e36530. doi: 10.7554/eLife.36530. PMID: 30095066; PMCID: PMC6086667.

An evolutionarily conserved ribosome-rescue pathway maintains epidermal homeostasis.

Liakath-Ali K, Mills EW, Sequeira I, Lichtenberger BM, Pisco AO, Sipilä KH, Mishra A, Yoshikawa H, Wu CC, Ly T, Lamond AI, Adham IM, Green R, Watt FM. 

Nature. 2018 Apr;556(7701):376-380. doi: 10.1038/s41586-018-0032-3. Epub 2018 Apr 11. PMID: 29643507.

TDP-43 stabilises the processing intermediates of mitochondrial transcripts.

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. 2017 Aug 9;7(1):7709. doi: 10.1038/s41598-017-06953-y. PMID: 28794432; PMCID: PMC5550480.

Poly(A)-specific ribonuclease regulates the processing of small-subunit rRNAs in human cells. 

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. 2017 Apr 7;45(6):3437-3447. doi: 10.1093/nar/gkw1047. PMID: 27899605; PMCID: PMC5389690.

Chtop (Chromatin target of Prmt1) auto-regulates its expression level via intron retention and nonsense-mediated decay of its own mRNA.

Izumikawa K, Yoshikawa H, Ishikawa H, Nobe Y, Yamauchi Y, Philipsen S, Simpson RJ, Isobe T, Takahashi N. 

Nucleic Acids Res. 2016 Nov 16;44(20):9847-9859. doi: 10.1093/nar/gkw831. Epub 2016 Sep 28. PMID: 27683223; PMCID: PMC5175361.

Plant Raf-like kinase integrates abscisic acid and hyperosmotic stress signaling upstream of SNF1-related protein kinase2. 

Saruhashi M, Kumar Ghosh T, Arai K, Ishizaki Y, Hagiwara K, Komatsu K, Shiwa Y, Izumikawa K, Yoshikawa H, Umezawa T, Sakata Y, Takezawa D. 

Proc Natl Acad Sci U S A. 2015 Nov 17;112(46):E6388-96. doi: 10.1073/pnas.1511238112. Epub 2015 Nov 4. PMID: 26540727; PMCID: PMC4655548.

Collaborator of alternative reading frame protein (CARF) regulates early processing of pre-ribosomal RNA by retaining XRN2 (5'-3' exoribonuclease) in the nucleoplasm. 

Sato S, Ishikawa H, Yoshikawa H, Izumikawa K, Simpson RJ, Takahashi N. 

Nucleic Acids Res. 2015 Dec 2;43(21):10397-410. doi: 10.1093/nar/gkv1069. Epub 2015 Nov 3. PMID: 26531822; PMCID: PMC4666357.

Human nucleolar protein Nop52 (RRP1/NNP-1) is involved in site 2 cleavage in internal transcribed spacer 1 of pre-rRNAs at early stages of ribosome biogenesis. 

Yoshikawa H, Ishikawa H, Izumikawa K, Miura Y, Hayano T, Isobe T, Simpson RJ, Takahashi N. 

Nucleic Acids Res. 2015 Jun 23;43(11):5524-36. doi: 10.1093/nar/gkv470. Epub 2015 May 12. PMID: 25969445; PMCID: PMC4477673.

Human cell growth regulator Ly-1 antibody reactive homologue accelerates processing of preribosomal RNA.

Miyazawa N, Yoshikawa H (co-first), Magae S, Ishikawa H, Izumikawa K, Terukina G, Suzuki A, Nakamura-Fujiyama S, Miura Y, Hayano T, Komatsu W, Isobe T, Takahashi N. 

Genes Cells. 2014 Apr;19(4):273-86. doi: 10.1111/gtc.12129. Epub 2014 Feb 4. PMID: 24495227.

Identification of truncated forms of U1 snRNA reveals a novel RNA degradation pathway during snRNP biogenesis. 

Ishikawa H, Nobe Y, Izumikawa K, Yoshikawa H, Miyazawa N, Terukina G, Kurokawa N, Taoka M, Yamauchi Y, Nakayama H, Isobe T, Takahashi N. 

Nucleic Acids Res. 2014 Feb;42(4):2708-24. doi: 10.1093/nar/gkt1271. Epub 2013 Dec 5. PMID: 24311566; PMCID: PMC3936765.

Splicing factor 2-associated protein p32 participates in ribosome biogenesis by regulating the binding of Nop52 and fibrillarin to preribosome particles. 

Yoshikawa H, Komatsu W, Hayano T, Miura Y, Homma K, Izumikawa K, Ishikawa H, Miyazawa N, Tachikawa H, Yamauchi Y, Isobe T, Takahashi N. 

Mol Cell Proteomics. 2011 Aug;10(8):M110.006148. doi: 10.1074/mcp.M110.006148. Epub 2011 May 2. PMID: 21536856; PMCID: PMC3149089.

Parvulin (Par14), a peptidyl-prolyl cis-trans isomerase, is a novel rRNA processing factor that evolved in the metazoan lineage. 

Fujiyama-Nakamura S, Yoshikawa H (co-first), Homma K, Hayano T, Tsujimura-Takahashi T, Izumikawa K, Ishikawa H, Miyazawa N, Yanagida M, Miura Y, Shinkawa T, Yamauchi Y, Isobe T, Takahashi N. 

Mol Cell Proteomics. 2009 Jul;8(7):1552-65. doi: 10.1074/mcp.M900147-MCP200. Epub 2009 Apr 14. PMID: 19369196; PMCID: PMC2716718.