ZFIN ID: ZDB-PERS-970425-29
Kikuchi, Yutaka
Email: yutaka@hiroshima-u.ac.jp
Affiliation: Kikuchi Lab
Address: Department of Biological Science Graduate School of Science Hiroshima University 1-3-1 Kagamiyama Higashi-Hiroshima, Hiroshima, 739-8526 Japan
Country: Japan
Phone: +81-82-424-7440
Fax: +81-82-424-1492


Shirai, M., Shimoda, N., Takahashi, H., Takayama, K., Kikuchi, Y. (2023) Microarray transcriptome datasets of maternal-zygotic DNA methyltransferase 3aa-/- zebrafish during early developmental stages. Data in brief. 47:108967108967
Shirai, M., Takayama, K., Takahashi, H., Hirose, Y., Fujii, M., Awazu, A., Shimoda, N., Kikuchi, Y. (2022) Methylome data derived from maternal-zygotic DNA methyltransferase 3aa-/- zebrafish. Data in brief. 44:108514
Takayama, K., Muto, A., Kikuchi, Y. (2018) Leucine/glutamine and v-ATPase/lysosomal acidification via mTORC1 activation are required for position-dependent regeneration. Scientific Reports. 8:8278
Hozumi, S., Shirai, M., Wang, J., Aoki, S., Kikuchi, Y. (2018) The N-terminal domain of gastrulation brain homeobox 2 (Gbx2) is required for iridophore specification in zebrafish. Biochemical and Biophysical Research Communications. 502(1):104-109
Miles, L.B., Mizoguchi, T., Kikuchi, Y., Verkade, H. (2017) A role for planar cell polarity during early endoderm morphogenesis. Biology Open. 6:531-539
Shiomi, T., Muto, A., Hozumi, S., Kimura, H., Kikuchi, Y. (2017) Histone H3 Lysine 27 Trimethylation Leads to Loss of Mesendodermal Competence During Gastrulation in Zebrafish Ectodermal Cells. Zoological science. 34:64-71
Nakahara, Y., Muto, A., Hirabayashi, R., Sakuma, T., Yamamoto, T., Kume, S., Kikuchi, Y. (2016) Temporal effects of Notch signaling and potential cooperation with multiple downstream effectors on adenohypophysis cell specification in zebrafish. Genes to cells : devoted to molecular & cellular mechanisms. 21(5):492-504
Shimoda, N., Hirose, K., Kaneto, R., Izawa, T., Yokoi, H., Hashimoto, N., Kikuchi, Y. (2014) No Evidence for AID/MBD4-Coupled DNA Demethylation in Zebrafish Embryos. PLoS One. 9:e114816
Hirose, K., Shiomi, T., Hozumi, S., Kikuchi, Y. (2014) Mechanistic target of rapamycin complex 1 signaling regulates cell proliferation, cell survival, and differentiation in regenerating zebrafish fins. BMC Developmental Biology. 14:42
Muto, A., Ikeda, S., Lopez-Burks, M.E., Kikuchi, Y., Calof, A.L., Lander, A.D., Schilling, T.F. (2014) Nipbl and Mediator Cooperatively Regulate Gene Expression to Control Limb Development. PLoS Genetics. 10:e1004671
Takayama, K., Shimoda, N., Takanaga, S., Hozumi, S., and Kikuchi, Y. (2014) Expression patterns of dnmt3aa, dnmt3ab, and dnmt4 during development and fin regeneration in zebrafish. Gene expression patterns : GEP. 14(2):105-110
Shimoda, N., Izawa, T., Yoshizawa, A., Yokoi, H., Kikuchi, Y., and Hashimoto, N. (2014) Decrease in cytosine methylation at CpG island shores and increase in DNA fragmentation during zebrafish aging. Age (Dordrecht, Netherlands). 36(1):103-15
Hirabayashi, R., Hozumi, S., Higashijima, S.I., and Kikuchi, Y. (2013) Ddx46 Is Required for Multi-Lineage Differentiation of Hematopoietic Stem Cells in Zebrafish. Stem cells and development. 22(18):2532-42
Hirose, K., Shimoda, N., and Kikuchi, Y. (2013) Transient reduction of 5-methylcytosine and 5-hydroxymethylcytosine is associated with active DNA demethylation during regeneration of zebrafish fin. Epigenetics. 8(9):899-906
Hozumi, S., Hirabayashi, R., Yoshizawa, A., Ogata, M., Ishitani, T., Tsutsumi, M., Kuroiwa, A., Itoh, M., and Kikuchi, Y. (2012) DEAD-Box Protein Ddx46 Is Required for the Development of the Digestive Organs and Brain in Zebrafish. PLoS One. 7(3):e33675
Yoshizawa, A., Nakahara, Y., Izawa, T., Ishitani, T., Tsutsumi, M., Kuroiwa, A., Itoh, M., and Kikuchi, Y. (2011) Zebrafish Dmrta2 regulates neurogenesis in the telencephalon. Genes to cells : devoted to molecular & cellular mechanisms. 16(11):1097-1109
Hirose, K., Shimoda, N., and Kikuchi, Y. (2011) Expression patterns of lgr4 and lgr6 during zebrafish development. Gene expression patterns : GEP. 11(7):378-83
Kinkel, M.D., Sefton, E.M., Kikuchi, Y., Mizoguchi, T., Ward, A.B., and Prince, V.E. (2009) Cyp26 enzymes function in endoderm to regulate pancreatic field size. Proceedings of the National Academy of Sciences of the United States of America. 106(19):7864-7869
Mizoguchi, T., Verkade, H., Heath, J.K., Kuroiwa, A., and Kikuchi, Y. (2008) Sdf1/Cxcr4 signaling controls the dorsal migration of endodermal cells during zebrafish gastrulation. Development (Cambridge, England). 135(15):2521-2529
Nomiyama, H., Hieshima, K., Osada, N., Kato-Unoki, Y., Otsuka-Ono, K., Takegawa, S., Izawa, T., Yoshizawa, A., Kikuchi, Y., Tanase, S., Miura, R., Kusuda, J., Nakao, M., and Yoshie, O. (2008) Extensive Expansion and Diversification of the Chemokine Gene Family in Zebrafish: Identification of a Novel Chemokine Subfamily CX. BMC Genomics. 9(1):222
Wilkins, S.J., Yoong, S., Verkade, H., Mizoguchi, T., Plowman, S.J., Hancock, J.F., Kikuchi, Y., Heath, J.K., and Perkins, A.C. (2008) Mtx2 directs zebrafish morphogenetic movements during epiboly by regulating microfilament formation. Developmental Biology. 314(1):12-22
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
Mizoguchi, T., Izawa, T., Kuroiwa, A., and Kikuchi, Y. (2006) Fgf signaling negatively regulates Nodal-dependent endoderm induction in zebrafish. Developmental Biology. 300(2):612-622
Sakaguchi, T., Kikuchi, Y., Kuroiwa, A., Takeda, H., and Stainier, D.Y. (2006) The yolk syncytial layer regulates myocardial migration by influencing extracellular matrix assembly in zebrafish. Development (Cambridge, England). 133(20):4063-4072
Bjornson, C.R., Griffin, K.J., Farr, G.H. 3rd, Terashima, A., Himeda, C., Kikuchi, Y., and Kimelman, D. (2005) Eomesodermin is a localized maternal determinant required for endoderm induction in zebrafish. Developmental Cell. 9(4):523-533
Fukuda, K., and Kikuchi, Y. (2005) Endoderm development in vertebrates: fate mapping, induction and regional specification. Development, growth & differentiation. 47(6):343-355
Kikuchi, Y., Verkade, H., Reiter, J.F., Kim, C.H., Chitnis, A.B., Kuroiwa, A., and Stainier, D.Y. (2004) Notch signaling can regulate endoderm formation in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 229(4):756-762
Reim, G., Mizoguchi, T., Stainier, D.Y., Kikuchi, Y., and Brand, M. (2004) The POU domain protein spg (pou2/Oct4) is essential for endoderm formation in cooperation with the HMG domain protein casanova. Developmental Cell. 6(1):91-101
Skromne, I., Kikuchi, Y., Stainier, D., and Ho, R.K. (2002) The para-hox gene caudal is required for tail formation in zebrafish. Developmental Biology. 247(2):472-473
Mizuno, T., Kawasaki, M., Nakahira, M., Kagamiyama, H., Kikuchi, Y., Okamoto, H., Mori, K., and Yoshihara, Y. (2001) Molecular diversity in zebrafish NCAM family: three members with different VASE usage and distinct localization. Molecular and cellular neurosciences. 18(1):119-130
Kikuchi, Y., Agathon, A., Alexander, J., Thisse, C., Waldron, S., Yelon, D., Thisse, B., and Stainier, D.Y. (2001) casanova encodes a novel Sox-related protein necessary and sufficient for early endoderm formation in zebrafish. Genes & Development. 15(12):1493-1505
Segawa, H., Miyashita, T., Hirate, Y., Higashijima, S., Chino, N., Uyemura, K., Kikuchi, Y., and Okamoto, H. (2001) Functional repression of islet-2 by disruption of complex with Ldb impairs peripheral axonal outgrowth in embryonic zebrafish. Neuron. 30(2):423-436
Reiter, J.F., Kikuchi, Y., and Stainier, D.Y. (2001) Multiple roles for Gata5 in zebrafish endoderm formation. Development (Cambridge, England). 128(1):125-135
Kikuchi, Y., Trinh, L.A., Reiter, J.F., Alexander, J., Yelon, D., and Stainier, D.Y.R. (2000) The zebrafish bonnie and clyde gene encodes a Mix family homeodomain protein that regulates the generation of endodermal precursors. Genes & Development. 14(10):1279-1289
Saito, T., Hascilowicz, T., Ohkido, I., Kikuchi, Y., Okamoto, H., Hayashi, S., Murakami, Y., and Matsufuji, S. (2000) Two zebrafish (Danio rerio) antizymes with different expression and activities. The Biochemical journal. 345(1):99-106
Mieda, M., Kikuchi, Y., Hirate, Y., Aoki, M., and Okamoto, H. (1999) Compartmentalized expression of zebrafish ten-m3 and ten-m4, homologues of the Drosophila ten(m)/odd Oz gene, in the central nervous system. Mechanisms of Development. 87(1-2):223-227
Kikuchi, Y., Segawa, H., Tokumoto, M., Tsubokawa, T., Hotta, Y., Uyemura, K., and Okamoto, H. (1997) Ocular and cerebellar defects in zebrafish induced by overexpression of the LIM domains of the islet-3 LIM/homeodomain protein. Neuron. 18(3):369-382
Segawa, H., Kikuchi, Y., Chino, N., Uyemura, K., and Okamoto, H. (1997) Peripheral-branch specific control of axonogenesis in zebrafish sensory neurons by LIM/homeodomain proteins, Islet-2 and Islet-3. Neuroscience research. :7-29
Kikuchi, Y., Segawa, H., Tokumoto, M., Hotta, Y., Uyemura, K., and Okamoto, H. (1997) Functional analysis of zebrafish Islet-3. Neuroscience research.
Shimoda, N., Chevrette, M., Ekker, M., Kikuchi, Y., Hotta, Y., and Okamoto, H. (1996) Mermaid, a family of short interspersed repetitive elements, is useful for zebrafish genome mapping. Biochemical and Biophysical Research Communications. 220:233-237
Kikuchi, Y., Tokumoto, M., Hotta, Y., Uyemura, K., and Okamoto, H. (1996) Functional analysis of zebrafish Islet-1 protein family. Neuroscience research. 25 sup. 2:116