ZFIN ID: ZDB-PERS-960805-246
Hibi, Masahiko
Email: hibi.masahiko.s7@f.mail.nagoya-u.ac.jp
URL:
Affiliation: Hibi Lab
Address: Graduate School of Science Nagoya University Furo, Chikusa Nagoya, Aichi, 464-8601 Japan
Country: Japan
Phone: 81-52-789-5198
Fax: 81-52-789-5053
ORCID ID:


BIOGRAPHY AND RESEARCH INTERESTS
In vertebrates, the process by which a fertilized egg forms organs with complex structures and functions is precisely regulated. In our laboratory, using zebrafish and medaka, we are analyzing the molecular mechanisms that regulate the formation and function of vertebrate organs through two major research themes.

The first theme pertains to the study of neural circuits that control complex animal behaviors. During the developmental process, individual neural domains are determined along the anterior-posterior axis within the neural tissue, where neural stem cells or neural progenitor cells are generated. Neurons are produced from these cells and, as they move, they extend their neural processes to form neural circuits. In our research, we focus on the cerebellum as a model for studying neural circuits. We aim to understand the molecular mechanisms of cerebellar neural circuit formation and to elucidate the role of the cerebellar neural circuit in higher functions such as motor learning, fear response learning, and social behaviors.

The second theme involves analyzing the differentiation mechanism of neural crest cells. Neural crest cells are stem cells formed on the dorsal side of the early vertebrate embryo. These cells migrate and differentiate into various cell types, including pigment cells, while exerting their functions. We are deciphering the gene cascade that controls the differentiation process from neural crest cells to diverse cell types.


PUBLICATIONS
Miyadai, M., Takada, H., Shiraishi, A., Kimura, T., Watakabe, I., Kobayashi, H., Nagao, Y., Naruse, K., Higashijima, S.I., Shimizu, T., Kelsh, R.N., Hibi, M., Hashimoto, H. (2023) A gene regulatory network combining Pax3/7, Sox10 and Mitf generates diverse pigment cell types in medaka and zebrafish. Development (Cambridge, England). 150(19):
Hagio, H., Koyama, W., Hosaka, S., Song, A.D., Narantsatsral, J., Matsuda, K., Shimizu, T., Hososhima, S., Tsunoda, S.P., Kandori, H., Hibi, M. (2023) Optogenetic manipulation of neuronal and cardiomyocyte functions in zebrafish using microbial rhodopsins and adenylyl cyclases. eLIFE. 12:
Hagio, H., Koyama, W., Hosaka, S., Song, A.D., Narantsatsral, J., Matsuda, K., Sugihara, T., Shimizu, T., Koyanagi, M., Terakita, A., Hibi, M. (2023) Optogenetic manipulation of Gq- and Gi/o-coupled receptor signaling in neurons and heart muscle cells. eLIFE. 12:
Tsunogai, Y., Miyadai, M., Nagao, Y., Sugiwaka, K., Kelsh, R.N., Hibi, M., Hashimoto, H. (2021) Contribution of sox9b to pigment cell formation in medaka fish. Development, growth & differentiation. 63:516-522
Kim, J., Hyun, M., Hibi, M., You, Y.J. (2021) Maintenance of quiescent oocytes by noradrenergic signals. Nature communications. 12:6925
Itoh, T., Inoue, S., Sun, X., Kusuda, R., Hibi, M., Shimizu, T. (2021) Cfdp1 controls the cell cycle and neural differentiation in the zebrafish cerebellum and retina. Developmental Dynamics : an official publication of the American Association of Anatomists. 250(11):1618-1633
Koyama, W., Hosomi, R., Matsuda, K., Kawakami, K., Hibi, M., Shimizu, T. (2021) Involvement of cerebellar neural circuits in active avoidance conditioning in zebrafish. eNeuro. 8(3):
Itoh, T., Takeuchi, M., Sakagami, M., Asakawa, K., Sumiyama, K., Kawakami, K., Shimizu, T., Hibi, M. (2020) Gsx2 is required for specification of neurons in the inferior olivary nuclei from Ptf1a-expressing neural progenitors in zebrafish. Development (Cambridge, England). 147(19):
Chang, W., Pedroni, A., Hohendorf, V., Giacomello, S., Hibi, M., Köster, R.W., Ampatzis, K. (2020) Functionally distinct Purkinje cell types show temporal precision in encoding locomotion. Proceedings of the National Academy of Sciences of the United States of America. 117(29):17330-17337
Verreet, T., Weaver, C.J., Hino, H., Hibi, M., Poulain, F.E. (2019) Syntaphilin-mediated docking of mitochondria at the growth cone is dispensable for axon elongation in vivo. eNeuro. 6(5):
Nimura, T., Itoh, T., Hagio, H., Hayashi, T., Di Donato, V., Takeuchi, M., Itoh, T., Inoguchi, F., Sato, Y., Yamamoto, N., Katsuyama, Y., Del Bene, F., Shimizu, T., Hibi, M. (2019) Role of Reelin in cell positioning in the cerebellum and the cerebellum-like structure in zebrafish. Developmental Biology. 455(2):393-408
Dohaku, R., Yamaguchi, M., Yamamoto, N., Shimizu, T., Osakada, F., Hibi, M. (2019) Tracing of Afferent Connections in the Zebrafish Cerebellum Using Recombinant Rabies Virus. Frontiers in neural circuits. 13:30
Wada, S., Shen, B., Kawano-Yamashita, E., Nagata, T., Hibi, M., Tamotsu, S., Koyanagi, M., Terakita, A. (2018) Color opponency with a single kind of bistable opsin in the zebrafish pineal organ. Proceedings of the National Academy of Sciences of the United States of America. 115(44):11310-11315
Nagao, Y., Takada, H., Miyadai, M., Adachi, T., Seki, R., Kamei, Y., Hara, I., Taniguchi, Y., Naruse, K., Hibi, M., Kelsh, R.N., Hashimoto, H. (2018) Distinct interactions of Sox5 and Sox10 in fate specification of pigment cells in medaka and zebrafish. PLoS Genetics. 14:e1007260
Kidwell, C.U., Su, C.Y., Hibi, M., Moens, C.B. (2018) Multiple zebrafish atoh1 genes specify a diversity of neuronal types in the zebrafish cerebellum. Developmental Biology. 438(1):44-56
Hino, H., Nakanishi, A., Seki, R., Aoki, T., Yamaha, E., Kawahara, A., Shimizu, T., Hibi, M. (2017) Roles of maternal wnt8a transcripts in axis formation in zebrafish. Developmental Biology. 434(1):96-107
Matsuda, K., Yoshida, M., Kawakami, K., Hibi, M., Shimizu, T. (2017) Granule cells control recovery from classical conditioned fear responses in the zebrafish cerebellum. Scientific Reports. 7:11865
Takeuchi, M., Inoue, C., Goshima, A., Nagao, Y., Shimizu, K., Miyamoto, H., Shimizu, T., Hashimoto, H., Yonemura, S., Kawahara, A., Hirata, Y., Yoshida, M., Hibi, M. (2017) Medaka and zebrafish contactin1 mutants as a model for understanding neural circuits for motor coordination. Genes to cells : devoted to molecular & cellular mechanisms. 22(8):723-741
Takeuchi, M., Yamaguchi, S., Sakakibara, M., Hayashi, T., Matsuda, K., Hara, Y., Tanegashima, C., Shimizu, T., Kuraku, S., Hibi, M. (2017) Gene expression profiling of granule cells and Purkinje cells in the zebrafish cerebellum. The Journal of comparative neurology. 525(7):1558-1585
Hibi, M., Matsuda, K., Takeuchi, M., Shimizu, T., Murakami, Y. (2017) Evolutionary mechanisms that generate morphology and neural-circuit diversity of the cerebellum. Development, growth & differentiation. 59(4):228-243
Yun, U.J., Sung, J.Y., Park, S.Y., Ye, S.K., Shim, J., Lee, J.S., Hibi, M., Bae, Y.K., Kim, Y.N. (2017) Oncogenic role of rab escort protein 1 through EGFR and STAT3 pathway. Cell Death & Disease. 8:e2621
Chiba, A., Watanabe-Takano, H., Terai, K., Fukui, H., Miyazaki, T., Uemura, M., Hashimoto, H., Hibi, M., Fukuhara, S., Mochizuki, N. (2017) Osteocrin, a peptide secreted from the heart and other tissues, contributes to cranial osteogenesis and chondrogenesis in zebrafish. Development (Cambridge, England). 144(2):334-344
Song, K.H., Woo, S.R., Chung, J.Y., Lee, H.J., Oh, S.J., Hong, S.O., Shim, J., Kim, Y.N., Rho, S.B., Hong, S.M., Cho, H., Hibi, M., Bae, D.J., Kim, S.Y., Kim, M.G., Kim, T.W., Bae, Y.K. (2017) REP1 inhibits FOXO3-mediated apoptosis to promote cancer cell survival. Cell Death & Disease. 8:e2536
Scalise, K., Shimizu, T., Hibi, M., Sawtell, N.B. (2016) Responses of cerebellar Purkinje cells during fictive optomotor behavior in larval zebrafish. Journal of neurophysiology. 116(5):2067-2080
Kawakami, K., Asakawa, K., Hibi, M., Itoh, M., Muto, A., Wada, H. (2016) Gal4 Driver Transgenic Zebrafish: Powerful Tools to Study Developmental Biology, Organogenesis, and Neuroscience. Advances in genetics. 95:65-87
Kim, J.D., Park, K.E., Ishida, J., Kako, K., Hamada, J., Kani, S., Takeuchi, M., Namiki, K., Fukui, H., Fukuhara, S., Hibi, M., Kobayashi, M., Kanaho, Y., Kasuya, Y., Mochizuki, N., Fukamizu, A. (2015) PRMT8 as a phospholipase regulates Purkinje cell dendritic arborization and motor coordination. Science advances. 1:e1500615
Takeuchi, M., Yamaguchi, S., Yonemura, S., Kakiguchi, K., Sato, Y., Higashiyama, T., Shimizu, T., Hibi, M. (2015) Type IV Collagen Controls the Axogenesis of Cerebellar Granule Cells by Regulating Basement Membrane Integrity in Zebrafish. PLoS Genetics. 11:e1005587
Takeuchi, M., Matsuda, K., Yamaguchi, S., Asakawa, K., Miyasaka, N., Lal, P., Yoshihara, Y., Koga, A., Kawakami, K., Shimizu, T., Hibi, M. (2015) Establishment of Gal4 transgenic zebrafish lines for analysis of development of cerebellar neural circuitry. Developmental Biology. 397(1):1-17
Kwon, H.B., Fukuhara, S., Asakawa, K., Ando, K., Kashiwada, T., Kawakami, K., Hibi, M., Kwon, Y.G., Kim, K.W., Alitalo, K., and Mochizuki, N. (2013) The parallel growth of motoneuron axons with the dorsal aorta depends on Vegfc/Vegfr3 signaling in zebrafish. Development (Cambridge, England). 140(19):4081-4090
Kuscha, V., Frazer, S.L., Dias, T.B., Hibi, M., Becker, T., and Becker, C.G. (2012) Lesion-induced generation of interneuron cell types in specific dorso-ventral domains in the spinal cord of adult zebrafish. The Journal of comparative neurology. 520(16):3604-3616
Tran, L.D., Hino, H., Quach, H., Lim, S., Shindo, A., Mimori-Kiyosue, Y., Mione, M., Ueno, N., Winkler, C., Hibi, M., and Sampath, K. (2012) Dynamic microtubules at the vegetal cortex predict the embryonic axis in zebrafish. Development (Cambridge, England). 139(19):3644-3652
Hashimoto, M., and Hibi, M. (2012) Development and evolution of cerebellar neural circuits. Development, growth & differentiation. 54(3):373-389
Hibi, M., and Shimizu, T. (2012) Development of the cerebellum and cerebellar neural circuits. Developmental Neurobiology. 72(3):282-301
Imai, H., Oomiya, Y., Kikkawa, S., Shoji, W., Hibi, M., Terashima, T., and Katsuyama, Y. (2012) Dynamic changes in the gene expression of zebrafish Reelin receptors during embryogenesis and hatching period. Development, growth & differentiation. 54(2):253-263
Yanicostas, C., Barbieri, E., Hibi, M., Brice, A., Stevanin, G., and Soussi-Yanicostas, N. (2012) Requirement for zebrafish ataxin-7 in differentiation of photoreceptors and cerebellar neurons. PLoS One. 7(11):e50705
Takano, A., Zochi, R., Hibi, M., Terashima, T., and Katsuyama, Y. (2011) Function of strawberry notch Family Genes in the Zebrafish Brain Development. The Kobe journal of medical sciences. 56(5):E220-E230
Tanabe, K., Kani, S., Shimizu, T., Bae, Y.K., Abe, T., and Hibi, M. (2010) Atypical protein kinase C regulates primary dendrite specification of cerebellar Purkinje cells by localizing Golgi apparatus. The Journal of neuroscience : the official journal of the Society for Neuroscience. 30(50):16983-16992
Kani, S., Bae, Y.K., Shimizu, T., Tanabe, K., Satou, C., Parsons, M.J., Scott, E., Higashijima, S.I., and Hibi, M. (2010) Proneural gene-linked neurogenesis in zebrafish cerebellum. Developmental Biology. 343(1-2):1-17
Takano, A., Zochi, R., Hibi, M., Terashima, T., and Katsuyama, Y. (2010) Expression of strawberry notch family genes during zebrafish embryogenesis. Developmental Dynamics : an official publication of the American Association of Anatomists. 239(6):1789-1796
Nojima, H., Rothhämel, S., Shimizu, T., Kim, C.H., Yonemura, S., Marlow, F.L., and Hibi, M. (2010) Syntabulin, a motor protein linker, controls dorsal determination. Development (Cambridge, England). 137(6):923-933
Bae, Y.K., Kani, S., Shimizu, T., Tanabe, K., Nojima, H., Kimura, Y., Higashijima, S.I., and Hibi, M. (2009) Anatomy of zebrafish cerebellum and screen for mutations affecting its development. Developmental Biology. 330(2):406-426
Shimizu, T., and Hibi, M. (2009) Formation and patterning of the forebrain and olfactory system by zinc-finger genes Fezf1 and Fezf2. Development, growth & differentiation. 51(3):221-231
Kim, H., Kim, S., Chung, A.Y., Bae, Y.K., Hibi, M., Lim, C.S., and Park, H.C. (2008) Notch-regulated perineurium development from zebrafish spinal cord. Neuroscience letters. 448(3):240-244
Asakawa, K., Suster, M.L., Mizusawa, K., Nagayoshi, S., Kotani, T., Urasaki, A., Kishimoto, Y., Hibi, M., and Kawakami, K. (2008) Genetic dissection of neural circuits by Tol2 transposon-mediated Gal4 gene and enhancer trapping in zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 105(4):1255-1260
Katsuyama, Y., Oomiya, Y., Dekimoto, H., Motooka, E., Takano, A., Kikkawa, S., Hibi, M., and Terashima, T. (2007) Expression of zebrafish ROR alpha gene in cerebellar-like structures. Developmental Dynamics : an official publication of the American Association of Anatomists. 236(9):2694-2701
Nikaido, M., Doi, K., Shimizu, T., Hibi, M., Kikuchi, Y., and Yamasu, K. (2007) Initial specification of the epibranchial placode in zebrafish embryos depends on the fibroblast growth factor signal. Developmental Dynamics : an official publication of the American Association of Anatomists. 236(2):564-571
Shimizu, T., Bae, Y.K., and Hibi, M. (2006) Cdx-Hox code controls competence for responding to Fgfs and retinoic acid in zebrafish neural tissue. Development (Cambridge, England). 133(23):4709-4719
Muraoka, O., Shimizu, T., Yabe, T., Nojima, H., Bae, Y.K., Hashimoto, H., and Hibi, M. (2006) Sizzled controls dorso-ventral polarity by repressing cleavage of the Chordin protein. Nature cell biology. 8(4):329-340
Hirata, T., Nakazawa, M., Yoshihara, S., Miyachi, H., Kitamura, K., Yoshihara, Y., and Hibi, M. (2006) Zinc-finger gene Fez in the olfactory sensory neurons regulates development of the olfactory bulb non-cell-autonomously. Development (Cambridge, England). 133(8):1433-1443
Shimizu, T., Yabe, T., Muraoka, O., Yonemura, S., Aramaki, S., Hatta, K., Bae, Y.K., Nojima, H., and Hibi, M. (2005) E-cadherin is required for gastrulation cell movements in zebrafish. Mechanisms of Development. 122(6):747-763
Shimizu, T., Bae, Y.K., Muraoka, O., and Hibi, M. (2005) Interaction of Wnt and caudal-related genes in zebrafish posterior body formation. Developmental Biology. 279(1):125-141
Bae, Y.K., Shimizu, T., and Hibi, M. (2005) Patterning of proneuronal and inter-proneuronal domains by hairy- and enhancer of split-related genes in zebrafish neuroectoderm. Development (Cambridge, England). 132(6):1375-1385
Yamamoto, A., Nagano, T., Takehara, S., Hibi, M., and Aizawa, S. (2005) Shisa promotes head formation through the inhibition of receptor protein maturation for the caudalizing factors, Wnt and FGF. Cell. 120(2):223-35
Hirata, T., Suda, Y., Nakao, K., Narimatsu, M., Hirano, T., and Hibi, M. (2004) Zinc finger gene fez-like functions in the formation of subplate neurons and thalamocortical axons. Developmental Dynamics : an official publication of the American Association of Anatomists. 230(3):546-556
Bae, Y.K., Shimizu, T., Muraoka, O., Yabe, T., Hirata, T., Nojima, H., Hirano, T., and Hibi, M. (2004) Expression of sax1/nkx1.2 and sax2/nkx1.1 in zebrafish. Gene expression patterns : GEP. 4(4):481-486
Nojima, H., Shimizu, T., Kim, C.H., Yabe, T., Bae, Y.K., Muraoka, O., Hirata, T., Chitnis, A., Hirano, T., and Hibi, M. (2004) Genetic evidence for involvement of maternally derived Wnt canonical signaling in dorsal determination in zebrafish. Mechanisms of Development. 121(4):371-386
Hashimoto, H., Rebagliati, M., Ahmad, N., Muraoka, O., Kurokawa, T., Hibi, M., and Suzuki, T. (2004) The Cerberus/Dan-family protein Charon is a negative regulator of Nodal signaling during left-right patterning in zebrafish. Development (Cambridge, England). 131(8):1741-1753
Yabe, T., Shimizu, T., Muraoka, O., Bae, Y.-K., Hirata, T., Nojima, H., Kawakami, A., Hirano, T., and Hibi, M. (2003) Ogon/Secreted Frizzled functions as a negative feedback regulator of Bmp signaling. Development (Cambridge, England). 130(12):2705-2716
Bae, Y.K., Shimizu, T., Yabe, T., Kim, C.H., Hirata, T., Nojima, H., Muraoka, O., Hirano, T., and Hibi, M. (2003) A homeobox gene, pnx, is involved in the formation of posterior neurons in zebrafish. Development (Cambridge, England). 130(9):1853-1865
Levkowitz, G., Zeller, J., Sirotkin, H.I., French, D., Schilbach, S., Hashimoto, H., Hibi, M., Talbot, W.S., and Rosenthal, A. (2003) Zinc finger protein too few controls the development of monoaminergic neurons. Nature Neuroscience. 6(1):28-33
Shimizu, T., Yamanaka, Y., Nojima, H., Yabe, T., Hibi, M., and Hirano, T. (2002) A novel repressor-type homeobox gene, ved, is involved in dharma/bozozok-mediated dorsal organizer formation in zebrafish. Mechanisms of Development. 118(1-2):125-38
Hibi, M., Hirano, T., and Dawid, I.B. (2002) Organizer formation and function. Results and problems in cell differentiation. 40:48-71
Ryu, S.-L., Fujii, R., Yamanaka, Y., Shimizu, T., Yabe, T., Hirata, T., Hibi, M., and Hirano, T. (2001) Regulation of dharma/bozozok by the Wnt Pathway. Developmental Biology. 231(2):397-409
Muraoka, O., Ichikawa, H., Shi, H., Okumura, S., Taira, E., Higuchi, H., Hirano, T., Hibi, M., and Miki, N. (2000) Kheper, a Novel ZFH/δEF1 Family Member, Regulates the Development of the Neuroectoderm of Zebrafish (Danio rerio). Developmental Biology. 228(1):29-40
Park, H.-C., Kim, C.-H., Bae, Y.-K., Yee, S.-Y., Kim, S.-H., Hong, S.-K., Shin, J., Yoo, K.-W., Hibi, M., Hirano, T., Miki, N., Chitnis, A.B., and Huh, T.-L. (2000) Analysis of upstream elements in the HuC promoter leads to the establishment of transgenic zebrafish with fluorescent neurons. Developmental Biology. 227(2):279-293
Hashimoto, H., Yabe, T., Hirata, T., Shimizu, T., Bae, Y., Yamanaka, Y., Hirano, T., and Hibi, M. (2000) Expression of the zinc finger gene fez-like in zebrafish forebrain. Mechanisms of Development. 97(1-2):191-195
Fujii, R., Yamashita, S., Hibi, M., and Hirano, T. (2000) Asymmetric p38 activation in zebrafish: Its possible role in symmetric and synchronous cleavage. The Journal of cell biology. 150(6):1335-1347
Hirata, T., Yamanaka, Y., Ryu, S.L., Shimizu, T., Yabe, T., Hibi, M., and Hirano, T. (2000) Novel mix-family homeobox genes in zebrafish and their differential regulation. Biochemical and Biophysical Research Communications. 271(3):603-609
Shimizu, T., Yamanaka, Y., Ryu, S., Hashimoto, H., Yabe, T., Hirata, T., Bae, Y., Hibi, M., and Hirano, T. (2000) Cooperative roles of Bozozok/Dharma and Nodal-related proteins in the formation of the dorsal organizer in zebrafish. Mechanisms of Development. 91(1-2):293-303
Hashimoto, H., Itoh, M., Yamanaka, Y., Yamashita, S., Shimizu, T., Solnica-Krezel, L., Hibi, M., and Hirano, T. (2000) Zebrafish Dkk1 functions in forebrain specification and axial mesendoderm formation. Developmental Biology. 217(1):138-152
Fekany, K., Yamanaka, Y., Leung, T., Sirotkin, H.I., Topczewski, J., Gates, M.A., Hibi, M., Renucci, A., Stemple, D., Radbill, A., Schier, A.F., Driever, W., Hirano, T., Talbot, W.S., and Solnica-Krezel, L. (1999) The zebrafish bozozok locus encodes Dharma, a homeodomain protein essential for induction of gastrula organizer and dorsoanterior embryonic structures. Development (Cambridge, England). 126:1427-1438
Yamanaka, Y., Mizuno, T., Sasai, Y., Kishi, M., Takeda, H., Kim, C.-H., Hibi, M., and Hirano, T. (1998) A novel homeobox gene, dharma, can induce the organizer in a non-cell-autonomous manner. Genes & Development. 12:2345-2353
Kim, C.-H., Y.-K. Bae, Y. Yamanaka, S. Yamashita, T. Shimizu, R. Fujii, H.-C. Park, S.-Y. Yeo, T.-L. Huh, M. Hibi, and T. Hirano (1997) Overexpression of neurogenin induces ectopic expression of HuC in zebrafish. Neuroscience letters. 239:113-116

NON-ZEBRAFISH PUBLICATIONS
Ikenaga T, Shimomai R, Hagio H, Kimura S, Matsumoto K, Kato DI, Uesugi K, Takeuchi A, Yamamoto N, Hibi M. Morphological analysis of the cerebellum and its efferent system in a basal actinopterygian fish, Polypterus senegalus. J Comp Neurol. 2022 Jun;530(8):1231-1246. doi: 10.1002/cne.25271. Epub 2021 Nov 24. PMID: 34729771.

Wu D, Arakawa H, Fujita A, Hashimoto H, Hibi M, Naruse K, Kamei Y, Sato C, Kitajima K. A point-mutation in the C-domain of CMP-sialic acid synthetase leads to lethality of medaka due to protein insolubility. Sci Rep. 2021 Dec 1;11(1):23211. doi: 10.1038/s41598-021-01715-3. PMID: 34853329; PMCID: PMC8636478.