Analysis of the vertebrate development and regeneration system using medaka genome, EST and mutant resources

2009 Fiscal Year Final Research Report

• Project/Area Number: 17017003
• Research Category: Grant-in-Aid for Scientific Research on Priority Areas
• Allocation Type: Single-year Grants
• Review Section: Biological Sciences
• Research Institution: The University of Tokyo
• Principal Investigator: TAKEDA Hiroyuki The University of Tokyo, 大学院・理学系研究科, 教授 (80179647)
• Co-Investigator(Kenkyū-buntansha): KUDO Akira (70178002)
• Project Period (FY): 2005 – 2009
• Keywords: メダカ / ゲノム / EST / 突然変異体

Research Abstract

The medaka draft genome, together with genomic resources (SNP map, BAC contig, etc.), has been published by the Japanese group in 2007. This greatly facilitated developmental genetics using medaka as a model. In this project, we focused on the medaka developmental mutants isolated by Takeda's and Kudo's laboratories during 2005 to 2009. By the end of this project Takeda and Kudo successfully identified and functionally examined responsible genes for nine mutants (defective in gastrulation, body axes, liver and otolith), and fifteen ones (heart, blood cells, blood vesicle, vertebra, head skeletons, fin morphogenesis and fin regeneration), respectively.

Research Products

• [Journal Article] Pkd111 complexes with Pkd2 on motile cilia and functions to establish the left-right axis. (2011)
  • Author(s): Kamura, K., Kobayashi, D., Uehara, Y., Koshida, S., Iijima, N., Kudo, A., Yokoyama T., Takeda, H.
  • Journal Title: Development 138 Pages: 1121-1129
  • Peer Reviewed
• [Journal Article] The art of medaka genetics and genomics : what makes them so unique? (2010)
  • Author(s): Takeda, H., Shimada, A.
  • Journal Title: Ann.Rev.Genet. 44 Pages: 217-241
  • Peer Reviewed
• [Journal Article] Single-cell analysis of somatotopic map formation in the zebrafish lateral line system. (2010)
  • Author(s): Sato, A., Koshida, S., Takeda, H.
  • Journal Title: Dev.Dyn. 239 Pages: 2058-2065
  • Peer Reviewed
• [Journal Article] Emergence of traveling wave in the zebrafish segmentation clock. (2010)
  • Author(s): Ishimatsu, K., Takamatsu, A., Takeda, H.
  • Journal Title: Development 137 Pages: 1595-1599
  • Peer Reviewed
• [Journal Article] FAK-mediated extracellular signals are essential for interkinetic nuclear migration and planar divisions in the neuroepithelium. (2010)
  • Author(s): Tsuda, S., Kitagawa, T., Takashima, S., Asakawa, S., Shimizu, N., Mitani, H., Shima, A., Tsutsumi, M., Hori, H., Naruse, K., Ishikawa, Y., Takeda, H.
  • Journal Title: J.Cell Sci. 123 Pages: 484-496
  • Peer Reviewed
• [Journal Article] Production of Wnt4b by floor plate cells is essential for the segmental patterning of the vertebral column in medaka. (2010)
  • Author(s): Inohaya K, Takano Y, Kudo A.
  • Journal Title: Development 137 Pages: 1807-1813
  • Peer Reviewed
• [Journal Article] Incorporation of tenascin-C into the extracellular matrix by periostin underlies an extracellular meshwork architecture. (2009)
  • Author(s): Kii, I., Nishiyama, T., Li, M., Matsumoto, K., Saito, M., Amizuka, N., Kudo, A.
  • Journal Title: J.Biol.Chem. 285 Pages: 13294-13303
  • Peer Reviewed
• [Journal Article] Brpf1, a subunit of the MOZ histone acetyl transferase complex, maintains expression of anterior and posterior Hox genes for proper patterning of craniofacial and caudal skeletons. (2009)
  • Author(s): Hibiya, K., Katsumoto, T., Kondo, T., Kitabayashi, I., Kudo, A.
  • Journal Title: Dev.Biol. 329 Pages: 176-190
  • Peer Reviewed
• [Journal Article] Gene expression and functional analysis of zebrafish larval fin fold regeneration. (2009)
  • Author(s): Yoshinari, N., Ishida, T., Kudo, A., Kawakami, A.
  • Journal Title: Dev.Biol. 325 Pages: 71-81
  • Peer Reviewed
• [Journal Article] Ktu/PF13 is required for cytoplasmic pre-assembly of axonemal dyneins. (2008)
  • Author(s): Omran, H., Kobayashi, D., Olbrich, H., Tsukahara, T., Loges, N.T., Hagiwara, H., Zhang, Q., Leblond, G., Toole, E.O', Hara, C., Mizuno, H., Kawano, H., Fliegauf, M., Yagi, T., Koshida, S., Miyawaki, A., Zentgraf, H., Seithe, H., Reinhardt, R., Watanabe, Y., Kamiya, R., Mitchell, D.R., Takeda, H.
  • Journal Title: Nature 456 Pages: 611-616
  • Peer Reviewed
• [Journal Article] Periostin is essential for cardiac healing after acute myocardial infarction. (2008)
  • Author(s): Shimazaki M, Nakamura K, Kii I, Kashima T, Amizuka N, Li M, Saito M, Fukuda K, Nishiyama T, Kitajima S, Saga Y, Fukayama M, Sata M, Kudo A.
  • Journal Title: J.Exp.Med 205 Pages: 295-303
  • Peer Reviewed
• [Journal Article] The medaka draft genome and insights into vertebrate genome evolution. (2007)
  • Author(s): Kasahara M, Naruse K, Sasaki S, Nakatani Y, Qu W, Ahsan B, Yamada T, Nagayasu Y, Doi K, Kasai Y., et al
  • Journal Title: Nature 447 Pages: 714-719
  • Peer Reviewed
• [Journal Article] The teleost intervertebral region acts as a growth center of the centrum : in vivo visualization of osteoblasts and their progenitors in transgenic fish (2007)
  • Author(s): Inohaya, K., Takano, Y., Kudo, A.
  • Journal Title: Dev.Dyn. 236 Pages: 3031-3046
  • Peer Reviewed
• [Journal Article] Identification of novel markers expressed during fin regeneration by microarray analysis in medaka fish (2007)
  • Author(s): Nishidate, M., Nakatani, Y., Kudo, A., Kawakami, A.
  • Journal Title: Dev.Dyn. 236 Pages: 2685-2693
  • Peer Reviewed
• [Journal Article] Noise-resistant and synchronized oscillation of the segmentation clock (2006)
  • Author(s): Horikawa, K., Ishimatsu, K., Yoshimoto, E., Kondo, S., Takeda, H.
  • Journal Title: Nature 441 Pages: 719-723
  • Peer Reviewed
• [Journal Article] Medaka unextented-fin mutants suggest a role for Hoxb8a in cell migration and osteoblast differentiation during appendage formation. (2006)
  • Author(s): Sakaguchi, S., Nakatani, Y., Takamatsu, N., Hori, H., Kawakami, A., Inohaya, K., Kudo, A.
  • Journal Title: Dev.Biol. 293 Pages: 426-438
  • Peer Reviewed
• [Journal Article] Vascular anatomy of the developing medaka, oryzias latipes : A complementary fish model for the cardiovascular research of vertebrate. (2006)
  • Author(s): Fujita, M., Isogai, S., Kudo, A.
  • Journal Title: Dev.Dyn. 235 Pages: 734-746
  • Peer Reviewed
• [Presentation] Mesodermal origin of scales and fins of the medaka-Insight into origin and evolution of mineralized skeleton in vertebrates (2011)
  • Author(s): Takeda, H.
  • Organizer: JSDB-GFE Joint Meeting of Developmental Bioligy
  • Place of Presentation: Dresden, Germany
  • Year and Date: 20110323-20110326
• [Presentation] Embryonic origin of osteoblasts in scales and fins of medaka fish (2010)
  • Author(s): Shimada, A., Kawanishi, T., Inohaya, K., Takeda, H.
  • Organizer: 2010 SDB-JSDB Joint Meeting
  • Place of Presentation: Albuquerque, U.S.A.
  • Year and Date: 20100805-20100809
• [Presentation] zic1 and zic4 expression in the somite regulates dorsalization of the fish trunk structures (2010)
  • Author(s): Kawanishi, T., Moriyama, Y., Nakamura, R., Shimada, A., Takeda, H.
  • Organizer: 2010 SDB-JSDB Joint Meeting
  • Place of Presentation: Albuquerque, U.S.A.
  • Year and Date: 20100805-20100809
• [Presentation] The zic genes as master regulators in dorsoventral patterning of the fish trunk structures (2010)
  • Author(s): Moriyama, Y., Nakamura, R., Kawanishi, T., Shimada, A., Takeda, H.
  • Organizer: 2nd Joint Meeting of the SFBD and JSDB
  • Place of Presentation: Paris, France
  • Year and Date: 20100526-20100528
• [Presentation] Live imaging of osteoclast activities in medaka under hypergravity (2009)
  • Author(s): Chatani, M., Kubota, I., Kudo, A.
  • Organizer: ELGRA biennial symposium and general assembly
  • Place of Presentation: Bonn, Germany
  • Year and Date: 20090901-20090904
• [Presentation] Characterization of medaka C-MYB mutant BENIFUJI, which displays defective hematopoietic progenitor differentiation, an insight into hematopoientic ontogenesis in medaka (2009)
  • Author(s): Moriyama, A., Maruyama, K., Kudo. A.
  • Organizer: 6th European Zebrafish Genetics and Development Meeting
  • Place of Presentation: Italy, Rome
  • Year and Date: 20090715-20090719
• [Presentation] In-vivo imaging for osteoclasts in medaka, showing the evidence of bone modeling (2008)
  • Author(s): Chatani, M., Inohaya, K., Kudo, A.
  • Organizer: The 8th international meeting on zebrafish development and genetics
  • Place of Presentation: Madison, USA
  • Year and Date: 20080625-20080629
• [Presentation] Identification and functional analysis of regeneration-associated molecules using the fin-fold regeneration model in juvenile zebrafish (2008)
  • Author(s): Kawakami, A., Ishida, T., Yoshinari, N., Kudo, A.
  • Organizer: The 8th international meeting on zebrafish development and genetics
  • Place of Presentation: Madison, USA
  • Year and Date: 20080625-20080629
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