研究成果

日下部岳広：ホヤの神経系と行動
『動物の多様な生き方５　さまざまな神経系をもつ動物たち：神経系の比較生物学』（日本比較生理生化学会編）
共立出版 (2009)

日下部岳広、酒井則良、新屋みのり、朊部淳彦、田畑純、鈴木信雄、吉崎範夫著・鈴木範男監修：『身近な動物を使った実験１　ホヤ　メダカ・ゼブラフィッシュ　キンギョ　カエル』
三共出版 (2009)

日下部岳広、堀江健生、川上功、大月恒、津田基之：ホヤ脳神経系の分子行動遺伝学−感覚受容から運動制御まで−
月刊海洋 号外 41, 52-60（2005）

日下部岳広：ホヤにおける遺伝子発現制御と遺伝子進化に関する研究
生物科学ニュース 405（2005年9月号）, 25-31（2005）

Kusakabe, T.: Regulation and evolution of genes in ascidians
Zool. Sci. 22 (12), 1372 (2005)

日下部岳広、津田基之：ホヤの光受容システム
生化学、第76巻 第4号, 368-373（2004）

Kusakabe, T.: Evolution of anural development in ascidians: role of muscle-specific differentiation genes
The Biology of Ascidians (Springer) pp 225-229 (2001)

日下部岳広、鈴木範男：グアニル酸シクラーゼcGMP情報伝達系の多様性と進化
蛋白質・核酸・酵素 増刊号『小型魚類研究の新展開』45 (17), 2931-2936 (2000)

日下部岳広：DNAって何？
道新TODAY 28 (5), 84-87 (2000)

日下部岳広：アクチンを通してみたホヤの進化と多様性
遺伝 50 (12), 23-28 (1996)

日下部岳広、佐藤矩行：アクチン遺伝子の構造と発現調節
蛋白質・核酸・酵素 38 (4), 721-730 (1993)

Sakai, S., Aoyama, M., Kawada, T., Kusakabe, T., Tsuda, M., and Satake, H.
Evidence for differential regulation of GnRH signaling via heterodimerization among GnRH receptor paralogs in the protochordate, Ciona intestinalis
Endocrinology, in press (DOI: 10.1210/en.2011-1668)

Nishitsuji, K., Horie, T., Ichinose, A., Sasakura, Y., Yasuo, H., and Kusakabe, T. G.
Cell lineage and cis-regulation for a unique GABAergic/glycinergic neuron type in the larval nerve cord of the ascidian Ciona intestinalis
Dev. Growth Differ., in press (DOI: 10.1111/j.1440-169X.2011.01319.x)

Okamura, K., Yamashita, R., Takimoto, N., Nishitsuji, K., Suzuki, Y., Kusakabe, T. G., and Nakai, K.
Profiling ascidian promoters as the primordial type of vertebrate promoter
BMC Genomics 12 (Suppl. 3), S7 (2011)

Heeringa, S. F., Chernin, G., Chaki, M., Zhou, W., Sloan, A. J., Ji, Z., Xie, L. X., Salviati, L., Hurd, T. W., Vega-Warner, V., Killen, P. D., Raphael, Y., Ashraf, S., Ovunc, B., Schoeb, D. S., McLaughlin, H. M., Airik, R., Vlangos, C. N., Gbadegesin, R., Hinkes, B., Saisawat, P., Trevisson, E., Doimo, M., Casarin, A., Pertegato, V., Giorgi, G., Prokisch, H., Rötig, A., Nürnberg, G., Becker, C., Wang, S., Ozaltin, F., Topaloglu, R., Bakkaloglu, A., Bakkaloglu, S. A., Müller, D., Beissert, A., Mir, S., Berdeli, A., Varpizen, S., Zenker, M., Matejas, V., Santos-Ocaña, C., Navas, P., Kusakabe, T., Kispert, A., Akman, S., Soliman, N. A., Krick, S., Mundel, P., Reiser, J., Nürnberg, P., Clarke, C. F., Wiggins, R. C., Faul, C., and Hildebrandt, F.
COQ6 mutations in human patients produce nephrotic syndrome with sensorineural deafness
J. Clin. Invest. 121 (5), 2013-2024 (2011)

Horie, T., Shinki, R., Ogura, Y., Kusakabe, T. G., Satoh, N., and Sasakura, Y.
Ependymal cells of chordate larvae are stem-like cells that form the adult nervous system
Nature 469 (7331), 525-528 (2011)

Khare, P., Mortimer, S., Cleto, C., Okamura, K., Suzuki, Y., Kusakabe, T., Nakai, K., Meedel, T., and Hastings, K.
Cross-validated methods for promoter/transcription start site mapping in SL trans-spliced genes, established using the Ciona intestinalis troponin I gene
Nucl. Acids Res. 39 (7), 2638-2648 (2011)

Tassy, O., Dauga, D., Daian, F., Sobral, D., Robin, F., Khoueiry, P., Salgado, D., Fox, V., Caillol, D., Schiappa, R., Laporte, B., Rios, A., Luxardi, G., Kusakabe, T., Joly, J.-S., Darras, S., Christiaen, L., Contensin, M., Auger, H., Lamy, C., Hudson, C., Rothbächer, U., Gilchrist, M., Makabe, K. W., Hotta, K., Fujiwara, S., Satoh, N., Satou, Y., and Lemaire, P.
The ANISEED database: digital representation, formalization and elucidation of a chordate developmental program
Genome. Res. 20 (10), 1459-1468 (2010)

O'Toole, J. F., Liu, Y., Davis, E. E., Westlake, C. J., Attanasio, M., Otto, E. A., Seelow, D., Nurnberg, G., Becker, C., Nuutinen, M., Kärppä, M., Ignatius, J., Uusimaa, J., Pakanen, S., Jaakkola, E., van den Heuvel, L. P., Fehrenbach, H., Wiggins, R., Goyal, M., Zhou, W., Wolf, M. T., Wise, E., Helou, J., Allen, S. J., Murga-Zamalloa, C. A., Ashraf, S., Chaki, M., Heeringa, S., Chernin, G., Hoskins, B. E., Chaib, H., Gleeson, J., Kusakabe, T., Suzuki, T., Isaac, R. E., Quarmby, L. M., Tennant, B., Fujioka, H., Tuominen, H., Hassinen, I., Lohi, H., van Houten, J. L., Rotig, A., Sayer, J. A., Rolinski, B., Freisinger, P., Madhavan, S. M., Herzer, M., Madignier, F., Prokisch, H., Nurnberg, P., Jackson, P. K., Khanna, H., Katsanis, N., and Hildebrandt, F.
Individuals with mutations in XPNPEP3, which encodes a mitochondrial protein, develop a nephronophthisis-like nephropathy
J. Clin. Invest. 120 (3), 791-802 (2010)

Sakai, T., Aoyama, M., Kusakabe, T., Tsuda, M., and Satake, H.
Functional diversity of signaling pathways through G protein-coupled receptor heterodimerization with a species-specific orphan receptor subtype
Mol. Biol. Evol. 27 (5), 1097-1106 (2010)

Horie, T., Nakagawa, M., Sasakura, Y., Kusakabe, T. G., and Tsuda, M.
Simple motor system of the ascidian larva: neuronal complex comprising putative cholinergic neurons and GABAergic/glycinergic neurons
Zool. Sci. 27 (2), 181-190 (2010)

Islam, A. F. M. T., Moly, P. K., Miyamoto, Y., and Kusakabe, T. G.
Distinctive expression patterns of Hedgehog pathway genes in the Ciona intestinalis
Zool. Sci. 27 (2), 84-90 (2010)

Kusakabe, T. G., Takimoto, N., Jin, M., and Tsuda, M.
Evolution and the origin of the visual retinoid cycle in vertebrates
Phil. Trans. R. Soc. Lond. B 364 (1531), 2897-2910 (2009)

Horie, T., Sasakura, Y., Nakagawa, M., and Kusakabe, T. G.
Cell type and function of neurons in the ascidian nervous system
Dev. Growth Differ. 51 (3), 207-220 (2009)

Dong, B., Horie, T., Denker, E., Kusakabe, T., Tsuda, M., Smith, W. C., and Jiang, D.
Tube formation by complex cellular processes in Ciona intestinalis notochord
Dev. Biol. 330 (2), 237-249 (2009)

Horie, T., Kusakabe, T., and Tsuda, M.
Glutamatergic networks in the Ciona intestinalis larva
J. Comp. Neurol. 508 (2), 249-263 (2008)

Horie, T., Sakurai, D., Ohtsuki, H., Terakita, A., Shichida, Y., Usukura, J., Kusakabe, T., and Tsuda, M.
Pigmented and nonpigmented ocelli in the brain vesicle of the ascidian larva
J. Comp. Neurol. 509 (1), 88-102 (2008)

Vandenbon, A., Miyamoto, Y., Takimoto, N., Kusakabe, T. and Nakai, K.
Markov chain-based promoter structure modeling for tissue-specific expression pattern prediction
DNA Res. 15 (1), 3-11 (2008)

Sakai, T., Aoyama, M., Kusakabe, T., Tsuda, M., and Satake, H.
Functions of a GnRH receptor heterodimer of the ascidian Ciona intestinalis
Acta Biol. Hung. 59 (Suppl.), 241-243 (2008)

Yoshida, R., Horie, T., Tsuda, M. and Kusakabe, T.G.
Comparative genomics identifies a cis-regulatory module that activates transcription in specific subsets of neurons in Ciona intestinalis larvae
Dev. Growth Differ. 49 (8), 657-667 (2007)

Kusakabe, T. and Tsuda, M.
Photoreceptive systems in ascidians
Photochem. Photobiol. 83 (2), 248-252 (2007)

Takimoto, N., Kusakabe, T., and Tsuda, M.
Origin of the vertebrate visual cycle
Photochem Photobiol. 83 (2), 242-247 (2007)

Sierro, N., Kusakabe, T., Park, K.-J., Yamashita, R., Kinoshita, K., and Nakai, K.
DBTGR: a database of tunicate promoters and their regulatory elements
Nucl. Acids Res. 34, D552-D555 (2006)

Sayer, J.A., Otto, E.A., O'toole, J.F., Nurnberg, G., Kennedy, M.A., Becker, C., Hennies, H.C., Helou, J., Attanasio, M., Fausett, B.V., Utsch, B., Khanna, H., Liu, Y., Drummond, I., Kawakami, I., Kusakabe, T., Tsuda, M., Ma, L., Lee, H., Larson, R.G., Allen, S.J., Wilkinson, C.J., Nigg, E.A., Shou, C., Lillo, C., Williams, D.S., Hoppe, B., Kemper, M.J., Neuhaus, T., Parisi, M.A., Glass, I.A., Petry, M., Kispert, A., Gloy, J., Ganner, A., Walz, G., Zhu, X., Goldman, D., Nurnberg, P., Swaroop, A., Leroux, M.R., and Hildebrandt, F.
The centrosomal protein nephrocystin-6 is mutated in Joubert syndrome and activates transcription factor ATF4
Nat. Genet. 38 (6), 674-681 (2006)

Takimoto, N., Kusakabe, T., Horie, T., Miyamoto, Y., and Tsuda, M.
Origin of the vertebrate visual cycle: III. Distinct distribution of RPE65 and β-carotene 15,15'-monooxygenase homologues in Ciona intestinalis
Photochem. Photobiol. 82 (6), 1468-1474 (2006)

Kusakabe, T.
Decoding cis-regulatory systems in ascidians
Zool. Sci. 22 (2), 129-146 (2005)

Barran, P.E., Roeske, R.W., Pawson, A.J., Sellar, R., Bowers, M.T., Morgan, K., Lu, Z.-L., Tsuda, M., Kusakabe, T., and Millar, R.P.
Evolution of constrained GnRH ligand conformation and receptor sensitivity
J. Biol. Chem. 280 (46), 38569-38575 (2005)

Otto, E.A., Loeys, B., Khanna, H., Hellemans, J., Sudbrak, R., Fan, S., Muerb, U., O'Toole, J.F., Helou, J., Attanasio, M., Utsch, B., Sayer, J.A., Lillo, C., Jimeno, D., Coucke, P., De Paepe, A., Reinhardt, R., Klages, S., Tsuda, M., Kawakami, I., Kusakabe, T., Omran, H., Imm, A., Tippens, M., Raymond, P.A., Hill, J., Beales, P., He, S., Kispert, A., Margolis, B., Williams, D.S., Swaroop, A., and Hildebrandt, F.
A novel ciliary IQ domain protein, NPHP5, is mutated in Senior-Loken syndrome (nephronophthisis with retinitis pigmentosa), and interacts with RPGR and calmodulin
Nat. Genet. 37 (3), 282-288 (2005)

Kusakabe, T., Yoshida, R., Ikeda, Y., and Tsuda, M.
Computational discovery of DNA motifs associated with cell type-specific transcription in Ciona
Dev. Biol. 276 (2), 563-580 (2004)

Yoshida, R., Sakurai, D., Horie, T., Kawakami, I., Tsuda, M., and Kusakabe, T.
Identification of neuron-specific promoters in Ciona intestinalis
Genesis 39 (2), 130-140 (2004)

Ando, H., Shi, Q., Kusakabe, T., Ohya, T., Suzuki, N., and Urano, A.
Localization of mRNAs encoding α and β subunits of soluble guanylyl cyclase in the brain of rainbow trout: comparison with the distribution of neuronal nitric oxide synthase
Brain Res. 1013 (1), 13-29 (2004)

Kusakabe, T., Mishima, S., Shimada, I., Kitajima, Y., and Tsuda, M.
Structure, expression, and cluster organization of genes encoding gonadotropin-releasing hormone receptors found in the neural complex of the ascidian Ciona intestinalis
Gene 322, 77-84 (2003)

Tsuda, M., Kusakabe, T., Iwamoto, H., Horie, T., Nakashima, Y., Nakagawa, M., and Okunou, K.
Origin of the vertebrate visual cycle. II. Visual cycle proteins are localized in whole brain including photoreceptor cells of a primitive chordate
Vision Res. 43 (28), 3045-3053 (2003)

Inada, K., Horie, T., Kusakabe, T., and Tsuda, M.
Targeted knockdown of an opsin gene inhibits the swimming behaviour photoresponse of ascidian larvae
Neurosci. Lett. 347 (3), 167-170 (2003)

Nakashima, Y., Kusakabe, T., Kusakabe, R., Terakita, A., Shichida, Y., and Tsuda, M.
Origin of the vertebrate visual cycle: genes encoding retinal photoisomerase and two putative visual cycle proteins are expressed in whole brain of a primitive chordate
J. Comp. Neurol. 460 (2), 180-190 (2003)

Yoshida, R., Kusakabe, T., Kamatani, M., Daitoh, M., and Tsuda, M.
Central nervous system-specific expression of G protein α-subunit isoforms in the ascidian Ciona intestinalis
Zool. Sci. 19 (10), 1079-1088 (2002)

Kusakabe, T., Nakashima, Y., Kusakabe, R., Takeo, H., Kawakami, I., Yoshida, R., Inada, K., Nakagawa, M., and Tsuda, M.
Phototransduction and visual cycle in the ascidian tadpole larva
J. Photosci. 9 (2), 37-40 (2002)

Satou, Y., Takatori, N., Fujiwara, S., Nishikata, T., Saiga, H., Kusakabe, T., Shin-i, T., Kohara, Y., and Satoh, N.
Ciona intestinalis cDNA projects: EST analyses and gene expression profiles during embryogenesis
Gene 287 (1-2), 83-96 (2002)

Kusakabe, T., Yoshida, R., Kawakami, I., Kusakabe, R., Mochizuki, Y., Yamada, L., Shin-i, T., Kohara, K., Satoh, N., Tsuda, M., and Satou, Y.
Gene expression profiles in tadpole larvae of Ciona intestinalis
Dev. Biol. 242 (2),188-203 (2002)

Kusakabe, T., Kusakabe, R., Kawakami, K., Satou, Y., Satoh, N., and Tsuda, M.
Ci-opsin1, a vertebrate-type opsin gene, expressed in the larval ocellus of the ascidian Ciona intestinalis
FEBS Lett. 506 (1), 69-72 (2001)

Kusakabe, T. and Suzuki, N.
A cis-regulatory element essential for photoreceptor-specific expression of a medaka retinal guanylyl cyclase gene
Dev. Genes Evol. 211 (3), 145-149 (2001)

Kusakabe, T. and Suzuki, N.
Photoreceptors and olfactory cells express the same retinal guanylyl cyclase isoform in medaka: visualization by promoter transgenics
FEBS Lett. 483 (2-3), 143-148 (2000)

Kusakabe, T. and Suzuki, N.
The guanylyl cyclase family in medaka fish Oryzias latipes
Zool. Sci. 17 (2), 131-140 (2000)

Naruse, K., Fukamachi, S., Mitani, H., Kondo, M., Matsuoka, T., Kondo, S., Hamamura, N., Morita, Y., Hasegawa, K., Nishigaki, R., Shimada, A., Wada, H., Kusakabe, T., Suzuki, N., Kinoshita, M., Kanamori, A., Terado, T., Kimura, H., Nonaka, M., and Shima, A.
A detailed linkage map of medaka, Oryzias latipes: comparative genomics and genome evolution
Genetics 154 (4), 1773-1784 (2000)

Kusakabe, R., Kusakabe, T., and Suzuki, N.
In vivo analysis of two striated muscle actin promoters reveals combinations of multiple regulatory modules required for skeletal and cardiac muscle-specific gene expression
Int. J. Dev. Biol. 43 (6), 541-554 (1999)

Mikami, T., Kusakabe, T., and Suzuki, N.
Tandem organization of medaka fish soluble guanylyl cyclase α1 and β1 subunit genes: implications for coordinated transcription of two subunit genes
J. Biol. Chem. 274 (26), 18567-18573 (1999)

Jeffery, W. R., Billie J. Swalla, B. J., Ewing, N., and Kusakabe, T.
Evolution of the ascidian anural larva: evidence from embryos and molecules
Mol. Biol. Evol. 16 (5), 646-654 (1999)

Mantoku, T., Muramatsu, R., Nakauchi, M., Yamagami, S., Kusakabe, T., and Suzuki, N.
Sequence analysis of cDNA and genomic DNA, and mRNA expression of the medaka fish homolog of the mammalian guanylyl cyclase C
J. Biochem. 125 (3), 476-486 (1999)

Kusakabe, R., Satoh, N., Holland, L. Z., and Kusakabe, T.
Genomic organization and evolution of actin genes in the amphioxus Branchiostoma belcheri and Branchiostoma floridae
Gene 227 (1), 1-10 (1999)

Mikami, T., Kusakabe, T., and Suzuki, N.
Molecular cloning of cDNAs and expression of mRNAs encoding a and b subunits of soluble guanylyl cyclase from medaka fish Oryzias latipes
Eur. J. Biochem. 253 (1), 42-48 (1998)

Kusakabe, T.
Ascidian actin genes: developmental regulation of gene expression and molecular evolution
Zool. Sci. 14 (5), 707-718 (1997)

Kusakabe, T., Araki, I., Satoh, N., and Jeffery, W. R.
Evolution of chordate actin genes: evidence from genomic organization and amino acid sequences
J. Mol. Evol. 44 (3), 289-298 (1997)

Seimiya, M., Kusakabe, T., and Suzuki, N.
Primary structure and differential gene expression of three membrane forms of guanylyl cyclases found in the eye of the teleost Oryzias latipes
J. Biol. Chem. 272 (37), 23407-23417 (1997)

Kusakabe, R., Kusakabe, T., Satoh, N., Holland, N. D., and Holland, L. Z.
Differential gene expression and intracellular mRNA localization of amphioxus actin isoforms throughout development: implications for conserved mechanisms of chordate development
Dev. Genes Evol. 207 (4), 203-215 (1997)

Hirose, E., Lambert, G., Kusakabe, T., and Nishikawa, T.
Tunic cuticular protrusions in ascidians (Chordata, Tunicata): a perspective of their character-state distribution
Zool. Sci. 14 (4), 683-689 (1997)

Araki, I., Tagawa, K., Kusakabe, T., and Satoh, N.
Predominant expression of a cytoskeletal actin gene in mesenchyme cells during embryogenesis of the ascidian Halocynthia roretzi
Dev. Growth Differ. 38 (4), 401-411 (1996)

Kusakabe, T., Swalla, B. J., Satoh, N., and Jeffery, W. R.
Mechanism of an evolutionary change in muscle cell differentiation in ascidians with different modes of development
Dev. Biol. 174 (2), 379-392 (1996)

Satou, Y., Kusakabe, T., Araki, I., and Satoh, N.
Timing of initiation of muscle-specific gene expression in the ascidian embryo precedes that of developmental fate restriction in lineage cells
Dev. Growth Differ. 37 (3), 319-327 (1995)

Kusakabe, T., Hikosaka, A., and Satoh, N.
Coexpression and promoter function in two muscle actin gene complexes of different structural organization in the ascidian Halocynthia roretzi
Dev. Biol. 169 (2), 461-472 (1995)

Kusakabe, T.
Expression of larval-type muscle actin-encoding genes in the ascidian Halocynthia roretzi
Gene 153 (2), 215-218 (1995)

Hikosaka, A., Kusakabe, T., and Satoh, N.
Short upstream sequences associated with the muscle-specific expression of an actin gene in ascidian embryos
Dev. Biol. 166 (2), 763-769 (1994)

Hikosaka, A., Kusakabe, T., Satoh, N., and Makabe, K. W.
Introduction and expression of recombinant genes in ascidian embryos
Dev. Growth Differ. 34 (6), 627-634 (1992)

Kusakabe, T., Makabe, K. W., and Satoh, N.
Tunicate muscle actin genes: structure and organization as a gene cluster
J. Mol. Biol. 227 (3), 955-960 (1992)

Kusakabe, T., Suzuki, J., Saiga, H., Jeffery, W. R., Makabe, K. W., and Satoh, N.
Temporal and spatial expression of a muscle actin gene during embryogenesis of the ascidian Halocynthia roretzi
Dev. Growth Differ. 33 (3), 227-234 (1991)