Publications

*Corresponding author
^‡Ebisuya lab member

*‡Sanaki-Matsumiya M, ‡Villava C, Rappez L, Haase K, Wu J, & *‡Ebisuya M.
Self-organization of vascularized skeletal muscle from bovine embryonic stem cells.
bioRxiv, doi: 10.1101/2024.03.22.586252 (2024).

‡Lázaro J, ‡Sochacki J & *^‡Ebisuya M.
The stem cell zoo for comparative studies of developmental tempo.
Curr Opin Genet Dev, 84, 102149 (2024).

*‡Stapornwongkul K, Hahn E, Salamo Palau L, Arato K, Gritti N, Anlas K, Poliński P, Osuna Lopez M, *‡Ebisuya M, & *Trivedi V.
Metabolic control of germ layer proportions through regulation of Nodal and Wnt signaling.
bioRxiv, doi.org/10.1101/2023.12.04.569862 (2023).

‡Lázaro J, ‡Costanzo M, ‡Sanaki-Matsumiya M, Girardot C, Hayashi M, Hayashi K, Diecke S, Hildebrandt TB, Lazzari G, Wu J, Petkov S, Behr R, *Trivedi V, *‡Matsuda M & *^‡Ebisuya M.
A stem cell zoo uncovers intracellular scaling of developmental tempo across mammals.
Cell Stem Cell, doi: 10.1016/j.stem.2023.05.014 (2023).

^‡Martínez-Ara G, ^‡Stapornwongkul K & *^‡Ebisuya M.
Scaling up complexity in synthetic developmental biology.
Science, 378, :864-868 (2022). Review article.

^‡Martínez-Ara G, ^‡Taberner N, ^‡Takayama M, ^‡Sandaltzopoulou E, ^‡Villava C, Bosch-Padrós M, Takata N, Trepat X, Eiraku M & *^‡Ebisuya M.
Optogenetic control of apical constriction induces synthetic morphogenesis in mammalian tissues.
Nat. Commun., 13, 5400, doi: 10.1038/s41467-022-33115-0 (2022).

*^‡Sanaki-Matsumiya M, ^‡Matsuda M, Gritti N, Nakaki F, Sharpe J, Trivedi V & *^‡Ebisuya M.
Periodic formation of epithelial somites from human pluripotent stem cells.
Nat. Commun., 13, 2325, doi: 10.1038/s41467-022-29967-1 (2022).

*Oriola D, Marin-Riera M, Anlas K, Gritti N, ^‡Sanaki-Matsumiya M, Aalderink G, ^‡Ebisuya M, Sharpe J, & *Trivedi V.
Arrested coalescence of multicellular aggregates.
Soft Matter, doi: 10.1039/d2sm00063f (2022).

*^‡Ebisuya M & *Trepat X.
Tension hones body segmentation around the clock.
Nature, doi: 10.1038/d41586-022-00840-x (2022). News and Views

Hiiragi T, Gladfelter AS, Miguel-Aliaga I, Coller HA, Lau OS, McBride HM, Aoki K, Linkermann A, Santaguida S, Wasteneys G, Rivron NC, Shahbazi MN, ^‡Ebisuya M & Lancaster MA.
20 years of Developmental Cell: Looking forward.
Dev. Cell, 56, 3185-3191 (2021). Opinion piece

^‡Matsuda M, ^‡Hayashi H, Garcia-Ojalvo J, Yoshioka-Kobayashi K, Kageyama R, Yamanaka Y, Ikeya M, Toguchida J, Alev C & *^‡Ebisuya M.
Species-specific segmentation clock periods are due to differential biochemical reaction speeds.
Science, 369, 1450-1455 (2020).

^‡Matsuda M, Yamanaka Y, Uemura M, Osawa M, Saito MK, Nagahashi A, Nishio M, Guo L, Ikegawa S, Sakurai S, Kihara S, Maurissen TL, Nakamura M, Matsumoto T, Yoshitomi H, Ikeya M, Kawakami N, Yamamoto T, Woltjen K, *^‡Ebisuya M, Toguchida J & *Alev C (*Co-corresponding).
Recapitulating the human segmentation clock with pluripotent stem cells.
Nature, 580, 124-129 (2020).

Tanaka N, ^‡Sekine R, Funano SI, Sato A, ^‡Carretero NT, ^‡Ebisuya M & *Tanaka Y.
Vacuum microcasting of 2-methacryloyloxyethyl phosphorylcholine polymer for stable cell patterning.
Biotechniques, doi: 10.2144/btn-2020-0052 (2020).

*Ebrahimkhani MR, *^‡Ebisuya M.
Synthetic developmental biology: build and control multicellular systems.
Curr. Opin. Chem. Biol., 52, 9-15 (2019). Review article

^‡Sekine R, Shibata T, *^‡Ebisuya M.
Synthetic mammalian pattern formation driven by differential diffusivity of Nodal and Lefty.
Nat. Commun., 9, 5456. doi: 10.1038/s41467-018-07847-x (2018).

*^‡Ebisuya M & *Briscoe J.
What does time mean in development?
Development, 145, doi: 10.1242/dev.164368 (2018). Review article

^‡Matsuda M, ^‡Koga M, Woltjen K, Nishida E & *^‡Ebisuya M.
Synthetic lateral inhibition governs cell-type bifurcation with robust ratios.
Nat. Commun., 6, 6195, doi: 10.1038/ncomms7195 (2015).

*Imajo M, ^‡Ebisuya M & *Nishida E.
Dual role of YAP and TAZ in renewal of the intestinal epithelium.
Nat. Cell Biol., 17, 7-19 (2015).

Lee J, Nakajima-Koyama M, Sone M, ^‡Koga M, ^‡Ebisuya M, Yamamoto T & *Nishida E.
Secreted Ephrin Receptor A7 Promotes Somatic Cell Reprogramming by Inducing ERK Activity Reduction.
Stem Cell Reports, 5, 480-489 (2015).

^‡Koga M, ^‡Matsuda M, Kawamura T, Sogo T, Shigeno A, *Nishida E & *^‡Ebisuya M.
Foxd1 is a mediator and indicator of the cell reprogramming process.
Nat. Commun., 5, 3197, doi: 10.1038/ncomms4197 (2014).

Takashima S, Hirose M, Ogonuki N, ^‡Ebisuya M, Inoue K, Kanatsu-Shinohara M, Tanaka T, Nishida E, Ogura A & *Shinohara T.
Regulation of pluripotency in male germline stem cells by Dmrt1.
Genes Dev., 27, 1949-1958 (2013).

Uno M, Honjoh S, Matsuda M, Hoshikawa H, Kishimoto S, Yamamoto T, ^‡Ebisuya M, Yamamoto T, Matsumoto K & *Nishida E.
A fasting-responsive signaling pathway that extends life span in C. elegans.
Cell Rep., 3, 79-91 (2013).

Tanimura N, Saito M, ^‡Ebisuya M, Nishida E & *Ishikawa F.
Stemness-related factor Sall4 interacts with transcription factors Oct-3/4 and Sox2 and occupies Oct-Sox elements in mouse embryonic stem cells.
J. Biol. Chem., 288, 5027-5038 (2013).

^‡Matsuda M, ^‡Koga M, Nishida E & *^‡Ebisuya M.
Synthetic signal propagation through direct cell-cell interaction.
Sci. Signal., 5, ra31 (2012).

Matsumura S, Hamasaki M, Yamamoto T, ^‡Ebisuya M, Sato M, Nishida E & *Toyoshima F.
ABL1 regulates spindle orientation in adherent cells and mammalian skin.
Nat. Commun., 3, 626, doi: 10.1038/ncomms1634 (2012).

Sunadome K, Yamamoto T, ^‡Ebisuya M, Kondoh K, Sehara-Fujisawa A & *Nishida E.
ERK5 regulates muscle cell fusion through Klf transcription factors.
Dev. Cell, 20, 192-205 (2011).

Mitsushima M, Aoki K, ^‡Ebisuya M, Matsumura S, Yamamoto T, Matsuda M, Toyoshima F & *Nishida E.
Revolving movement of a dynamic cluster of actin filaments during mitosis.
J. Cell Biol., 191, 453-462 (2010).

Yamazaki T, Fujiwara N, Yukinaga H, ^‡Ebisuya M, Shiki T, Kurihara T, Kioka N, Kambe T, Nagao M, Nishida E & *Masuda S.
The closely related RNA helicases, UAP56 and URH49, preferentially form distinct mRNA export machineries and coordinately regulate mitotic progression.
Mol. Biol. Cell, 21, 2953-2965 (2010).

^‡Ebisuya M, Yamamoto T, Nakajima M & *Nishida E.
Ripples from neighbouring transcription.
Nat. Cell Biol., 10, 1106-1113 (2008).

Yamamoto T#, ^‡Ebisuya M# (#Equal first authors), Ashida F, Okamoto K, Yonehara S & *Nishida E.
Continuous ERK activation downregulates antiproliferative genes throughout G1 phase to allow cell-cycle progression.
Curr. Biol., 16, 1171-1182 (2006).

^‡Ebisuya M, Kondoh K & *Nishida E.
The duration, magnitude and compartmentalization of ERK MAP kinase activity: mechanisms for providing signaling specificity.
J. Cell Sci., 118, 2997-3002 (2005). Review article

Matsubayashi Y, ^‡Ebisuya M, Honjoh S & *Nishida E.
ERK activation propagates in epithelial cell sheets and regulates their migration during wound healing.
Curr. Biol., 14, 731-735 (2004).