ZFIN Lab: Hibi Lab

ZFIN ID: ZDB-LAB-010829-2

Hibi Lab

PI/Director:	Hibi, Masahiko
Co-PI / Senior Researcher:	Hashimoto, Hisashi Shimizu, Takashi
Contact Person:	Hibi, Masahiko
Email:	hibi@bio.nagoya-u.ac.jp
URL:
Address:	Graduate School of Science Nagoya University Furo, Chikusa Nagoya, Aichi 464-8602 Japan
Country:	Japan
Phone:	81-52-789-5198
Fax:	81-52-789-5053
Line Designation:	nub

GENOMIC FEATURES ORIGINATING FROM THIS LAB

Show first 50 of 132 genomic features

STATEMENT OF RESEARCH INTERESTS

LAB MEMBERS

ZEBRAFISH PUBLICATIONS OF LAB MEMBERS

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

Osanai, Y., Shimizu, T., Mori, T., Hatanaka, N., Kimori, Y., Kobayashi, K., Koyama, S., Yoshimura, Y., Nambu, A., Ikenaka, K. (2018) Length of myelin internodes of individual oligodendrocytes is controlled by microenvironment influenced by normal and input-deprived axonal activities in sensory deprived mouse models. Glia. 66(11):2514-2525

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

Watakabe, I., Hashimoto, H., Kimura, Y., Yokoi, S., Naruse, K., Higashijima, S.I. (2018) Highly efficient generation of knock-in transgenic medaka by CRISPR/Cas9-mediated genome engineering. Zoological letters. 4:3

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

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

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

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

Goda, M., Kelsh, R.N., Hashimoto, H. (2014) Taking striping up a notch. Pigment cell & melanoma research. 27:688-9

Kimura, T., Nagao, Y., Hashimoto, H., Yamamoto-Shiraishi, Y., Yamamoto, S., Yabe, T., Takada, S., Kinoshita, M., Kuroiwa, A., and Naruse, K. (2014) Leucophores are similar to xanthophores in their specification and differentiation processes in medaka. Proceedings of the National Academy of Sciences of the United States of America. 111(20):7343-7348

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

Hattori, M., Hashimoto, H., Bubenshchikova, E., and Wakamatsu, Y. (2011) Nuclear Transfer of Embryonic Cell Nuclei to Non-enucleated Eggs in Zebrafish, Danio rerio. International journal of biological sciences. 7(4):460-468

Matsuda, Y., Ito, Y., Hashimoto, H., Yokoi, H., and Suzuki, T. (2011) Detection of vitellogenin incorporation into zebrafish oocytes by FITC fluorescence. Reproductive Biology and Endocrinolgy. 9:45

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

Sawatari, E., Hashimoto, H., Matsumura, T., Iwata, Y., Yamamoto, N., Yokoyama, Y., and Wakamatsu, Y. (2009) Cell growth-promoting activity of fluid from eye sacs of the bubble-eye goldfish (Carassius auratus). Zoological science. 26(4):254-258

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

Hashimoto, H., Uji, S., Kurokawa, T., Washio, Y., and Suzuki, T. (2007) Flounder and fugu have a single lefty gene that covers the functions of lefty1 and lefty2 of zebrafish during L-R patterning. Gene. 387(1-2):126-132

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

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

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

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

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

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

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

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

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

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

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

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

Suzuki, T., Kurokawa, T., Hashimoto, H., and Sugiyama, M. (2002) cDNA sequence and tissue expression of Fugu rubripes prion protein-like: a candidate for the teleost orthologue of tetrapod PrPs. Biochemical and Biophysical Research Communications. 294(4):912-917

Yamashita, S., Miyagi, C., Carmany-Rampey, A., Shimizu, T., Fujii, R., Schier, A.F., and Hirano, T. (2002) Stat3 controls cell movements during zebrafish gastrulation. Developmental Cell. 2(3):363-375

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