著書

1. ［筆頭著者＆責任著者論文］Matsui T.*, & Bessho Y. Analyzing ERK Signal Dynamics During Zebrafish Somitogenesis. Methods in Molecular Biology (ERK Signaling: Methods and Protocols), 1487, 367-378 (2017)

2. Suzuki A., Raya A., Kawakami Y, Morita M., Matsui T., Nakashima K., Gage FH., Rodríguez Esteban C., & Izpisúa Belmonte JC.* Maintenance of Embryonic Stem Cell Pluripotency by Nanog-Mediated Dedifferentiation of Committed Mesoderm Progenitors. Regulatory Networks in Stem Cells 37-53 (2009)

論文

3. Okochi Y., Matsui T., Sakaguchi S., Kondo T., Honda N Zero-shot reconstruction of mutant spatial transcriptomes. Patterns in press.

4. ［責任著者論文］Yamada S, Yasukuni R, Bessho Y, Fujita Y, Hosokawa Y, Matsui T*, Mechanochemical mechanism underlying intercellular Ca2+ wave propagation and its crucial role in apoptotic cell extrusion. Nature Communications,16, 9887 (2025) DOI:10.1038/s41467-025-65474-9.

5. Okochi Y*, Matsui T, Naoki H*, Zero-shot reconstruction of mutant spatial transcriptomes bioRxiv (2022) DOI:10.1101/2022.12.16.520397. 

6. Yamada S, Bessho Y, Fujita Y, Hosokawa Y, Matsui T*, A Ca2+ wave generates a force during cell extrusion in zebrafish. bioRxiv (2021) DOI: 10.1101/2021.07.14.452309. 

7. Ashimori A, Nakahata Y, Sato T, Fukamizu Y, Matsui T, Shinohara K, Bessho Y*. Attenuated SIRT1 activity leads to PER2 cytoplasmic localization and dampens the amplitude of Bmal1 promoter-driven circadian oscillation. Frontiers in Neuroscience 15, 506, 2021.　

8. Miyatake S, Kato M, Kumamoto T, Hirose T, Koshimizu K, Matsui T, Takeuchi H, Doi H, Hamada K, Nakashima M, Sasaki K, Yamashita A, Takata A, Hamanaka K, Satoh M, Miyama T, Sonoda T, Sasazuki M, Torisu H, Hara T, Sakai Y, Noguchi Y, Miura M, Nishimura Y, Nakamura K, Asai H, Hinokuma N, Miya F, Tsunoda T, Togawa M, Ikeda Y, Kimura N, Amemiya K, Horino A, Fukuoka M, Ikeda H, Merhav G, Ekhilevitch N, Miura M, Mizuguchi T, Miyake N, Suzuki A, Ohga S, Saitsu H, Takahashi H, Tanaka F, Ogata K, Ohtaka-Maruyama C, and Matsumoto N*. De novo ATP1A3 variants cause polymicrogyria. Science Advances, 7: eabd2368 (2021). 

9. Yasukuni R.*, Minamino D., Iino T., Yamada S., Bessho Y., Matsui T., & Hosokawa Y.* Pulsed laser activated impulse response encoder (PLAIRE): Sensitive evaluation of surface cellular stiffness on zebrafish embryos. Biomedical Optics Express, 12: 1366-1374 (2021).

10. Nuriliani A., Nakahata Y.*, Ahmed R., Khaidizar, FD., Matsui T., & Bessho Y. Overexpression of Nicotinamide phosphoribosyltransferase in mouse cells confers protective effect against oxidative and ER stress-induced premature senescence. Genes to Cells, 25:593–602 (2020).

11. ［責任著者論文］Karaiwa A., Yamada S., Yamamoto H., Wakasa M., Ishijima H., Akiyama R., Hosokawa Y., Bessho T., & Matsui T.* Relationship between surrounding tissue morphology and directional collective migration of the posterior lateral line primordium in zebrafish. Genes to Cells, 25:582–592 (2020). 

12. ［共責任著者論文］Takeuchi Y., Narumi R., Akiyama R., Vitiello E., Shirai T., Tanimura N., Kuromiya K., Ishikawa S., Kajita M., Tada M., Haraoka Y., Akieda Y., Ishitani T., Fujioka Y., Ohba Y., Yamada S., Hosokawa Y., Toyama Y., Matsui T.*, & Fujita Y.* Calcium wave promotes cell extrusion. Current Biology, 30: 670-681 (2020). 

13. Urasaki A., Morishita S., Naka K., Uozumi M., Abe K., Huang L., Watase E., Nakagawa O., Kawakami K., Matsui T., Bessho Y., & Inagaki N. * Shootins mediate collective cell migration and organogenesis of the zebrafish posterior lateral line system. Scientific Reports, 9: 12156 (2019). DOI: 10.1038/s41598-019-48585-4 

14. Abe K., Shimada S., Tayama S., Nishikawa S., Kaneko T., Tsuda S., Karaiwa A., Matsui T., Ishitani T., & Takeda, H.* Horizontal boundary cells, a special group of dermomyotomal cells, play crucial roles in the formation of dorsoventral compartments in teleost somite. Cell Reports, 27, 928-938 (2019). DOI: 10.1016/j.celrep.2019.03.068 

15. Ahmed R., Ashimori A., IwamotoS., Matsui T., Nakahata Y.*, & Bessho Y. Replicative senescent human cells possess altered circadian clocks with a prolonged period and delayed peak-time. Aging, 11, 950 (2019).  

16. Naoki H.*, Akiyama R., Sari DWK., Ishii S., Bessho Y., & Matsui T. Noise-resistant developmental reproducibility in vertebrate somite formation. PLoS computational biology 15, e1006579 (2019). DOI: 10.1371/journal.pcbi.1006579

17. ［責任著者論文］Wong KL., Akiyama R., Bessho Y., & Matsui T.* ERK Activity Dynamics during Zebrafish Embryonic Development. International journal of molecular sciences 20, 109 (2019). DOI: 10.3390/ijms20010109 

18. Hayashi S., Nakahata Y.*, Kohno K., Matsui T., & Bessho Y.* Presomitic mesoderm-specific expression of the transcriptional repressor Hes7 is controlled by E-box, T-box, and Notch signaling pathways. Journal of Biological Chemistry, 293, 12167-12176 (2018).

19. Yasukuni R., Minamino D., Watanabe T., Yamada S., Iino T., Bessho Y., Matsui T., & Hosokawa Y.* Pulsed-laser-activated impulse response encoder (PLAIRE): detection of core-shell structure of biomimetic micro gel-sphere. Applied Physics A 124, 594 (2018).

20. Ishimatsu K.*, Hiscock TW., Collins ZM, Kartika Sari DW., Lischer K., Richmond DL., Bessho Y., Matsui T., & Megason SG.* Size-reduced embryos reveal a gradient scaling based mechanism for zebrafish somite formation. Development, 145, 161257 (2018).

21. ［責任著者論文］Sari D., Akiyama R., Naoki H., Ishijima H., Bessho Y., & Matsui T.* Time-lapse observation of stepwise regression of Erk activity in zebrafish presomitic mesoderm. Scientific Reports, 8: 4335 (2018). DOI: 10.1038/s41598-018-22619-9.

22. Nakahata Y.*, Yasukawa S., Khaidizar FD., Shimba S., Matsui T., & Bessho Y. Bmal1 deficient mouse fibroblast cells do not provide premature cellular senescence in vitro. Chronobiology International, 35, 730-738 (2018). 

23. Khaidizar, FD., Nakahata, Y.*, Kume, A., Sumizawa, K., Kohno, K., Matsui T., Bessho, Y. Nicotinamide phosphoribosyltransferase delays cellular senescence by upregulating SIRT1 activity and antioxidant gene expression in mouse cells. Genes to Cells, 12: 982-992 (2017). 

24. ○［責任著者論文］Yamada S., Iino T., Bessho Y., Hosokawa Y., & Matsui T. * Quantitative analysis of mechanical force required for cell extrusion in zebrafish embryonic epithelia. Biology Open, 6, 1575-1580 (2017). DOI: 10.1242/bio.027847

25. Fujimuro T., Matsui T., Nitanda Y., Matta T., Sakumura Y., Saito M., Kohno K, Nakahata Y., & Bessho Y.* Hes7 3’UTR is required for somite segmentation function. Scientific Reports, 4: 6462 (2014). DOI: 10.1038/srep06462 

26. ○［責任著者論文］Akiyama R., Masuda M., Tsuge S., Bessho Y., & Matsui T.* An anterior limit of FGF/Erk signal activity marks the earliest future somite boundary in zebrafish. Development, 141, 1104-1109 (2014). 

27. ［責任著者論文］Retnoaji B, Akiyama R., Matta T., Bessho Y., & Matsui T.* Retinoic acid controls proper head-to-trunk linkage in zebrafish by regulating an anterior-posterior somatogenetic rate difference. Development 141, 158-165 (2014).

28. Nitanda Y., Matsui T., Matta T., Higami A., Kohno K., Nakahata Y., & Bessho Y.* 3’UTR-dependent regulation of mRNA turnover is critical for differential distribution patterns of cyclic gene mRNAs. FEBS Journal 281, 146-156 (2014). 

29. ［責任著者論文］Tahara N., Bessho Y., & Matsui T.* Celf1 Is Required for Formation of Endoderm-Derived Organs in Zebrafish. International journal of molecular sciences 14, 18009-18023 (2013). DOI: 10.3390/ijms140918009

30. ［筆頭著者＆責任著者論文］Matsui T.*, Sasaki A., Akazawa N., Otani H., and Bessho Y. Celf1 regulation of dmrt2a is required for somite symmetry and left-right patterning during zebrafish development. Development 139, 3553-3560 (2013)

31. Kim W., Matsui T., Yamao M., Ishibashi M., Tamada K., Takumi T., Kohno K., Oba S., Ishii S., Sakumura Y., & Bessho Y.* The period of the somite segmentation clock is sensitive to Notch activity. Molecular Biology of the Cell 18,3541-3549 (2011).

32. ［筆頭著者＆責任著者論文］Matsui T.*, Thitamadee S., Murata T., Kakinuma H, Nabetani T., Hirabayashi Y., Hirate Y., Okamoto H, & Bessho Y. Canopy1, a positive feedback regulator of FGF signaling, controls progenitor cell clustering during Kupffer’s vesicle organogenesis. Proceedings of the National Academy of Sciences of the United States of America 108, 9881-9886 (2011). 

33. Hayashi S., Shimoda T., Nakajima M., Tsukada Y., Sakumura Y, Dale JK, Maroto M., Kohno K., Matsui T., & Bessho Y.* Sprouty4, an FGF inhibitor, displays cyclic gene expression under the control of the Notch segmentation clock in the mouse PSM. PLoS One 4, e5603 (2009). DOI: 10.1371/journal.pone.0005603 

34. ［筆頭著論文］Matsui T., Raya A., Callol-Massot C., Kawakami Y., Oishi I., Esteban CR., & Izpisúa Belmonte JC.* miles-apart-Mediated regulation of cell-fibronectin interaction and myocardial migration in zebrafish. Nature Clinical Practice Cardiovascular Medicine S1, S77-S82 (2007).

35. Suzuki A., Raya A., Kawakami Y., Morita Y, Matsui T., Nakashima K., Gage FH, Esteban CR., & Izpisúa Belmonte JC.* Nanog binds to Smad1 and blocks bone morphogenetic protein-induced differentiation of embryonic stem cells. Proceedings of the National Academy of Sciences of the United States of America 103, 10294-10299 (2006).

36. Suzuki A., Raya A., Kawakami Y., Morita Y, Matsui T., Nakashima K., Gage FH, Esteban CR., & Izpisúa Belmonte JC.* Maintenance of embryonic stem cell pluripotency by Nanog-mediated reversal of mesoderm specification. Nature Clinical Practice Cardiovascular Medicine S1, S113-S122 (2006). 

37. Weninger WJ., Geyer SH., Mohun TJ., Resskin-Gutman D., Matsui T., Ribeiro I., de F. Costa L., Izpisúa Belmonte JC., & Muller GB.* High-resolution episcopic microscopy: a rapid technique for high detailed 3D analysis of gene activity in the context of tissue architecture and morphology. Anatomy and Embryology 211, 213-221 (2006).

38. Correa RG., Matsui T., Tergaonkar V., Esteban CR., Izpisúa Belmonte JC., & Verma IM.* Zebrafish IkappaB kinase 1 negatively regulates NF-kappaB activity. Current Biology 15, 1291-1295 (2005). 

39. ［筆頭著者論文］Matsui T., Raya A., Kawakami Y., Callol-Massot C., Capdevila J., Esteban CR., & Izpisúa Belmonte JC.* Noncanonical Wnt signaling regulates midline convergence of organ primordia during zebrafish development. Genes & Development 19, 164-175 (2005). 

40. Kawakami Y, Esteban CR., Matsui T., Rodríguez-León J., Kato S., & Izpisúa Belmonte JC.* Sp8 and Sp9, two closely related buttonhead-like transcription factors regulate Fgf8 expression and limb outgrowth in vertebrate embryos. Development 131, 4763-4774 (2004). 

41. ［筆頭著者論文］Matsui T., Kinoshita T., Hirano T., Yokota T., & Miyajima A.* STAT3 down-regulates the expression of cyclin D during liver development. Journal of Biological Chemistry 277, 36167-36173 (2002).

42. ○［筆頭著者論文］Matsui T., Kinoshita T., Morikawa Y, Tohya K, Katsuki M, Ito Y., Kamiya A., & Miyajima A.* K-Ras mediates cytokine-induced formation of E-cadherin-based adherens junctions during liver development. EMBO Journal 21, 1021-1030 (2002). 

43. ［共筆頭著者論文］Ito Y.1, Matsui T.1, Kamiya A., Kinoshita T., & Miyajima A.* (1equal contribution) Retroviral gene transfer of signaling molecules into murine fetal hepatocytes defines distinct roles for the STAT3 and Ras pathways during hepatic development. Hepatology 32, 1370-1376 (2000).

44. Kamiya A., Kinoshita T., Ito Y., Matsui T., Morikawa Y., Semba E., Nakashima K., Taga T., Yoshida K., Kishimoto T. & Miyajima A.* Fetal liver development requires a paracrine action of oncostatin M through the gp130 signal transducer. EMBO Journal 18, 2127-2136 (1999).

45. Tsuchiya N., Kamei D., Takano A., Matsui T. & Yamada M.* Cloning and characterization of a cDNA encoding a novel heterogeneous nuclear ribonucleoprotein-like protein and its expression in myeloid leukemia cells. Journal of Biochemistry 123, 499-507 (1998).

総説（欧文）

46. ［単一著者論文（筆頭著者＆責任著者論文）］Matsui T.* Calcium wave propagation during cell extrusion. Current Opinion in Cell Biology 76, 102083 (2022). DOI: 10.1016/j.ceb.2022.102083 

47. Shiromizu T., Yuge M., Kasahara K., Yamakawa D., Matsui T., Bessho Y., Inagaki M.*, Nishimura Y.* Targeting E3 Ubiquitin Ligases and Deubiquitinases in Ciliopathy and Cancer. International journal of molecular sciences 21:E5962. (2020). DOI: 10.3390/ijms21175962 

48. ［責任著者論文］Naoki H.* and Matsui T.* Somite boundary determination in normal and clock-less vertebrate embryos. Development, Growth & Differentiation, 62: 177-187 (2020).

49. ［単一著者論文（筆頭著者＆責任著者論文）］Matsui T.* Cell adhesion and migration in the development of multicellular organisms. Frontiers in Cell and Developmental Biology 6: 142 (2018). DOI: 10.3389/fcell.2018.00142 

50. Fujita M.*, Matsui T., & Ito A. Biomedical insights into cell adhesion and migration-from a viewpoint of central nervous system tumor immunology. Frontiers in Cell and Developmental Biology 3: 55 (2015). DOI: 10.3389/fcell.2015.00055

51. ［筆頭著者＆責任著者論文］Matsui T.*, Ishikawa H., and Bessho Y. Cell collectivity regulation within migrating cell cluster during Kupffer’s vesicle formation in zebrafish. Frontiers in Cell and Developmental Biology 3: 27 (2015). DOI: 10.3389/fcell.2015.00027 

52. ［筆頭著者＆責任著者論文］Matsui T.*, and Bessho Y. Left-right asymmetry in zebrafish. Cellular and Molecular Life Sciences 69: 3069-3077 (2012). 

総説（和文）

53. 松井貴輝*　 細胞競合とアクチンダイナミクス. 医学のあゆみ 274, 518-524. (2020).

54. 松井貴輝*　 ゼブラフィッシュ胚クッペル胞を作る自律的な細胞集塊形成. 細胞工学33, 598-601 (2014). 

55. 松井貴輝*, 岡本 仁, 別所 康全 Canopy1を介したFGFシグナルの活性制御機構. 細胞工学31,416-420 (2012).