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2006 Fiscal Year Final Research Report Summary

Post-sequencing functional studies on the pufferfish (Takifugu rubripes) genome

Research Project

Project/Area Number 14104008
Research Category

Grant-in-Aid for Scientific Research (S)

Allocation TypeSingle-year Grants
Research Field Fisheries chemistry
Research InstitutionThe University of Tokyo

Principal Investigator

WATABE Shugo  The University of Tokyo, Graduate School of Agricultural and Life Sciences, Professor, 大学院農学生命科学研究科, 教授 (40111489)

Co-Investigator(Kenkyū-buntansha) SUZUKI Yuzuru  The University of Tokyo, Graduate School of Agricultural and Life Sciences, Professor, 大学院農学生命科学研究科, 教授 (40107412)
OCHIAI Yoshihiro  The University of Tokyo, Graduate School of Agricultural and Life Sciences, Associate professor, 大学院農学生命科学研究科, 助教授 (50160891)
SUETAKE Hiroaki  The University of Tokyo, Graduate School of Agricultural and Life Sciences, Assistant, 大学院農学生命科学研究科, 助手 (00334326)
Project Period (FY) 2002 – 2006
Keywordstorafugu(Takifugu rubripes) / genome / molecular evolution / myosin / myosin heavy chain / lectin / biodefense / immunoglobulin
Research Abstract

1.Sequencing of 24,398 ESTs generated from 15 different adult and juvenile torafugu tissues resulted in 10,116 gene tags when compared with the genome data. The EST assemblies showed strong conservation with those of zebrafish, although significant differences remained between the two species.
2.Muscle specific genes, myosin heavy chain (MYH) and tropomyosin (TPM), and genes encoding myogenic regulatory factors (MyoD family) such as MyoD and myogenin were analyzed in silico and in vivo. Comparison with mammalian counterparts revealed that although the number of the MyoD family genes was almost the same, torafugu had MYHs and TPMs about twice as many as mammalian counterparts, which suggests genome duplication in teleost.
3.A total of 28 MYHs comprising 13 fast skeletal, 5 cardiac, 2 slow skeletal, 1 superfast, 2 smooth and 5 nonmuscle, were found in torafugu.
4.Torafugu fast skeletal MYHs were distributed across five genomic regions, three of which contained MYH clusters. While human 6 fast skeletal MYHs formed one cluster, its syntenic region in torafugu was duplicated, although each locus contained a single MYH. These results suggest that fast skeletal MYHs evolved independently in teleosts and tetrapods after they had diverged from a common ancestor.
5.Bacterial isolates from the torafugu skin were agglutinated by pufflectin, but could not adhere to the torafugu skin.
6.pIgR was isolated as an transporter of the skin mucus IgM and, unlike mammals, torafugu pIgR was expressed not only in the intestine but also in the skin. A fragment of pIgR could bind to tetrameric IgM in the skin mucus.
7.Marker genes of antigen presenting cells, CD11c, CD40 and MHC class IIα, and genes encoding costimulatory B7 molecules, B7-H1, B7-H3 and B7-H4, isolated from torafugu represent the first of these kinds from teleosts.

  • Research Products

    (62 results)

All 2007 2006 2005 2004 2003 2002

All Journal Article (60 results) Book (2 results)

  • [Journal Article] Identification of novel genes related to tetrodotoxin intoxication in pufferfish.2007

    • Author(s)
      Lee JH et al.
    • Journal Title

      Toxicon 49

      Pages: 939-953

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Identification of novel genes related to tetrodotoxin intoxication in pufferfish2007

    • Author(s)
      Lee JH et al.
    • Journal Title

      Toxicon 49

      Pages: 939-953

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] International symposium on functional genomics of pufferfish : recent advances and perspective : The University of Tokyo, Yayoi Auditorium, Tokyo, Japan, 3rd- 6th Nov 2004.2006

    • Author(s)
      Watabe S et al.
    • Journal Title

      Comp. Biochem. Physiol. Part D 1

      Pages: 4-5

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Diversity of the pufferfish Takifugu rubripes fast skeletal myosin heavy chain genes.2006

    • Author(s)
      Watabe S et al.
    • Journal Title

      Comp. Biochem. Physiol. Part D 1

      Pages: 28-34

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Myogenin in model pufferfish species : comparative genomic analysis and thermal plasticity of expression during early development.2006

    • Author(s)
      Fernandes JM et al.
    • Journal Title

      Comp. Biochem. Physiol. Part D 1

      Pages: 35-45

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Lymphocyte surface marker genes in fugu.2006

    • Author(s)
      Suetake S et al.
    • Journal Title

      Comp. Biochem. Physiol. Part D 1

      Pages: 102-108

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Novel mannose-specific lectins found in fugu, Takifugu rubripes : a review.2006

    • Author(s)
      Tsutsui S et al.
    • Journal Title

      Comp. Biochem. Physiol. Part D 1

      Pages: 122-127

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Molecular identification of pufferfish species using PCR amplification and restriction analysis of a segment of the 16SrRNA gene.2006

    • Author(s)
      Ishizaki S et al.
    • Journal Title

      Comp. Biochem. Physiol. Part D 1

      Pages: 139-144

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Distribution of tetrodotoxin in the xanthid crab (Atergatis floridus) collected in the coastal waters of Kanagawa and Wakayama Prefectures.2006

    • Author(s)
      Saito T et al.
    • Journal Title

      Comp. Biochem. Physiol. Part D 1

      Pages: 158-162

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Effects of steroid hormones on the apoptosis and IgM production of LPS-stimulated lymphocytes in the fugu, Takifugu rubripes.2006

    • Author(s)
      Saha NR et al.
    • Journal Title

      Fish. Sci. 72

      Pages: 136-142

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Possible role of a skin mucus lectin in fugu (Takifugu rubripes) in excluding marine bacteria from the body surface to environmental water.2006

    • Author(s)
      Tsutsui S et al.
    • Journal Title

      Fish. Sci. 72

      Pages: 455-457

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] The carbohydrate-binding site of a novel mannose-specific lectin isolated from the skin mucus of fugu (Takifugu rubripes).2006

    • Author(s)
      Tsutsui S et al.
    • Journal Title

      Comp. Biochem. Physiol. Part B 143

      Pages: 514-519

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] International symposium on functional genomics of pufferfish : recent advances and perspective : The University of Tokyo, Yayoi Auditorium, Tokyo, Japan, 3rd-6th Nov 20042006

    • Author(s)
      Watabe S et al.
    • Journal Title

      Comp.Biochem.Physiol.Part D 1

      Pages: 4-5

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Diversity of the pufferfish Takifugu rubripes fast skeletal myosin heavy chain genes2006

    • Author(s)
      Watabe S et al.
    • Journal Title

      Comp.Biochem.Physiol.Part D 1

      Pages: 28-34

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Myogenin in model pufferfish species : comparative genomic analysis and thermal plasticity of expression during early development2006

    • Author(s)
      Fernandes JM et al.
    • Journal Title

      Comp.Biochem.Physiol.Part D 1

      Pages: 35-45

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Lymphocyte surface marker genes in fugu2006

    • Author(s)
      Suetake S et al.
    • Journal Title

      Comp.Biochem.Physiol.Part D 1

      Pages: 102-108

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Novel mannose-specific lectins found in fugu, Takifugu rubripes ; a review2006

    • Author(s)
      Tsutsui S et al.
    • Journal Title

      Comp.Biochem.Physiol.Part D 1

      Pages: 122-127

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Molecular identification of pufferfish species using PCR amplification and restriction analysis of a segment of the 16S rRNA gene2006

    • Author(s)
      Ishizaki S et al.
    • Journal Title

      Comp.Biochem.Physiol.Part D 1

      Pages: 139-144

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Distribution of tetrodotoxin in the xanthid crab (Atergatis floridus) collected in the coastal waters of Kanagawa and Wakayama Prefectures2006

    • Author(s)
      Saito T et al.
    • Journal Title

      Comp.Biochem.Physiol.Part D 1

      Pages: 158-162

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Effects of steroid hormones on the apoptosis and IgM production of LPS-stimulated lymphocytes in the fugu, Takifugu rubripes2006

    • Author(s)
      Saha NR et al.
    • Journal Title

      Fish.Sci. 72

      Pages: 136-142

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Possible role of a skin mucus lectin in fugu (Takifugu rubripes) in excluding marine bacteria from the body surface to environmental water2006

    • Author(s)
      Tsutsui S et al.
    • Journal Title

      Fish.Sci. 72

      Pages: 455-457

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] The carbohydrate-binding site of a novel mannose-specific lectin isolated from the skin mucus of fugu (Takifugu rubripes)2006

    • Author(s)
      Tsutsui S et al.
    • Journal Title

      Comp.Biochem.Physiol.Part B 143

      Pages: 514-519

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Identification of three isoforms for mitochondrial adenine nucleotide translocator in the pufferfish Takifugu rubripes.2005

    • Author(s)
      Itoi S et al.
    • Journal Title

      Mitochondrion 5

      Pages: 162-172

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Characterization of the pufferfish Takifugu rubripes apolipoprotein multigene family.2005

    • Author(s)
      Kondo H et al.
    • Journal Title

      Gene 346

      Pages: 257-266

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] A genomic approach to reveal novel genes associated with myotube formation in the model teleost, Takifugu rubripes.2005

    • Author(s)
      Fernandes JM et al.
    • Journal Title

      Physiol. Genomics 22

      Pages: 327-338

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Characterization and expression analysis of CD3ε and CD3γ/δ in fugu, Takifugu rubripes.2005

    • Author(s)
      Araki K et al.
    • Journal Title

      Immunogenetics 57

      Pages: 158-163

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Analysis and characterization of the expression of the secretory and membrane forms of IgM heavy chains in the pufferfish, Fugu rubripes.2005

    • Author(s)
      Saha NR et al.
    • Journal Title

      Mol. Immunol. 42

      Pages: 113-124

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Demonstration of the mucosal lectins in the epithelial cells of intra- and extra-body surface tissues in pufferfish (Fugu rubripes).2005

    • Author(s)
      Tsutsui S et al.
    • Journal Title

      Dev. Comp. Immunol. 29

      Pages: 243-253

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Identification of three isoforms for mitochondrial adenine nucleotide translocator in the pufferfish Takifugu rubripes2005

    • Author(s)
      Itoi S et al.
    • Journal Title

      Mitochondrion 5

      Pages: 162-172

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Characterization of the pufferfish Takifugu rubripes apolipoprotein multigene family2005

    • Author(s)
      Kondo H et al.
    • Journal Title

      Gene 346

      Pages: 257-266

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] A genomic approach to reveal novel genes associated with myotube formation in the model teleost, Takifugu rubripes2005

    • Author(s)
      Fernandes JM et al.
    • Journal Title

      Physiol.Genomics 22

      Pages: 327-338

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Characterization and expression analysis of CD3ε and CD3Y/δ in fugu, Takifugu rubripes2005

    • Author(s)
      Araki K et al.
    • Journal Title

      Immunogenetics 57

      Pages: 158-163

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Analysis and characterization of the expression of the secretory and membrane forms of IgM heavy chains in the pufferfish, Fugu rubripes2005

    • Author(s)
      Saha NR et al.
    • Journal Title

      Immunol. 42

      Pages: 113-124

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Demonstration of the mucosal lectins in the epithelial cells of intra- and extra-body surface tissues in pufferfish (Fugu rubripes)2005

    • Author(s)
      Tsutsui S et al.
    • Journal Title

      Dev.Comp.Immunol 29

      Pages: 243-253

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] The reason why the torafugu genome project was commenced? -The value of torafugu genome database and the development of fish genomics. Function of marine organisms : How they adapt to diverse marine environments?2005

    • Author(s)
      Ikeda D et al.
    • Journal Title

      Tokai university press (Kanagawa)

      Pages: 160-182

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Studies on the self-defense on the skin surface of torafugu. Function of marine organisms : How they adapt to diverse marine environments?2005

    • Author(s)
      Suzuki et al.
    • Journal Title

      Tokai university press (Kanagawa)

      Pages: 137-147

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] トラフグ・ゲノム : 脊椎動物で最も小さいサイズ.2004

    • Author(s)
      池田大介ら
    • Journal Title

      蛋白質 核酸 酵素 49

      Pages: 2235-2241

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] トラフグゲノムの養殖への応用.2004

    • Author(s)
      池田大介ら
    • Journal Title

      月刊養殖 41

      Pages: 74-77

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Genomic structural analysis of the pufferfish (Takifugurubripes) skeletal myosin heavy chain genes.2004

    • Author(s)
      Ikeda D et al.
    • Journal Title

      Mar. Biotechnol. 6

      Pages: S462-S467

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Isolation of microsatellite markers by in silico screening implicated for genetic linkage mapping in Japanese pufferfish Takifugu rubripes.2004

    • Author(s)
      Furukawa S et al.
    • Journal Title

      Fish. Sci. 70

      Pages: 620-628

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Multiple genes organaization of pufferfish Fugu rubripes tropomyosin isoforms and tissue distribution of their transcripts.2004

    • Author(s)
      Toramoto T et al.
    • Journal Title

      Gene 331

      Pages: 41-51

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Cloning, expression, and characterization of fugu CD4, the first ectothermic animal CD4.2004

    • Author(s)
      Suetake H et al.
    • Journal Title

      Immunogenetics 56

      Pages: 368-374

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Characterization and expression of the immunoglobulin light chain in the fugu : evidence of a solitaire type.2004

    • Author(s)
      Saha NR et al.
    • Journal Title

      Immunogenetics 56

      Pages: 47-55

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Fugu genome : the smallest genome size in vertebrates. (in Japanese)2004

    • Author(s)
      Ikeda D et al.
    • Journal Title

      Tanpakushitsu Kakusan Koso 49

      Pages: 2235-2241

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Application of the torafugu genome data to aquaculture. (in Japanese)2004

    • Author(s)
      Ikeda D et al.
    • Journal Title

      Gekkan Yoshoku 41

      Pages: 74-77

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Genomic structural analysis of the pufferfish (Takifugu rubripes) skeletal myosin heavy chain genes2004

    • Author(s)
      Ikeda D et al.
    • Journal Title

      Mar.Biotechnol. 6

      Pages: S462-S467

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Isolation of microsatellite markers by in silico screening implicated for genetic linkage mapping in Japanese pufferfish Takifugu rubripes2004

    • Author(s)
      Furukawa S et al.
    • Journal Title

      Fish.Sci. 70

      Pages: 620-628

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Multiple genes organaization of pufferfish Fugu rubripes tropomyosin isoforms and tissue distribution of their transcripts2004

    • Author(s)
      Toramoto T et al.
    • Journal Title

      Gene 331

      Pages: 41-51

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Cloning, expression, and characterization of fugu CD4, the first ectothermic animal CD42004

    • Author(s)
      Suetake H et al.
    • Journal Title

      Immunogenetics 56

      Pages: 368-374

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Characterization and expression of the immunoglobulin light chain in the fugu : evidence of a solitaire type2004

    • Author(s)
      Saha NR et al.
    • Journal Title

      Immunogenetics 56

      Pages: 47-55

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Identification of novel tropomyosin 1 genes of pufferfish (Fugu rubripes) on genomic sequences and tissue distribution of their transcripts.2003

    • Author(s)
      Ikeda D et al.
    • Journal Title

      Mol. Biol. Rep. 38

      Pages: 83-90

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Primary structures and gene organizations of two types of Wap65 from the pufferfish Takifugu rubripes.2003

    • Author(s)
      Hirayama M et al.
    • Journal Title

      Fish Physiol. Biochem. 29

      Pages: 211-224

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Identification and characterization of Fugu orthologues of mammalian interleukin-12 subunits.2003

    • Author(s)
      Yoshiura Y et al.
    • Journal Title

      Immunogenetics 55

      Pages: 296-306

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Lectins homologous to those of monocotyledonous plants in the skin mucus and intestine of pufferfish, Fugu rubripes.2003

    • Author(s)
      Tsutsui S et al.
    • Journal Title

      J. Biol. Chem. 278

      Pages: 20882-20889

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Fugu ESTs : new resources for transcription analysis and genome annotation.2003

    • Author(s)
      Clark MS et al.
    • Journal Title

      Genome Res. 13

      Pages: 2747-2753

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Identification of novel tropomyosin 1 genes of pufferfish (Fugu rubripes) on genomic sequences and tissue distribution of their transcripts2003

    • Author(s)
      Ikeda D et al.
    • Journal Title

      Md.Biol.Rep. 38

      Pages: 83-90

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Primary structures and gene organizations of two types of Wap65 from the pufferfish Takifugu rubripes2003

    • Author(s)
      Hirayama M et al.
    • Journal Title

      Fish Physiol.Biochem. 29

      Pages: 211-224

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Identification and characterization of Fugu orthologues of mammalian interleukin-12 subunits2003

    • Author(s)
      Yoshiura Y et al.
    • Journal Title

      Immunogenetics 55

      Pages: 296-306

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Lectins homologous to those of monocotyledonous plants in the skin mucus and intestine of pufferfish, Fugu rubripes2003

    • Author(s)
      Tsutsui S et al.
    • Journal Title

      J.Biol.Chem. 278

      Pages: 20882-20889

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Fugu ESTs : new resources for transcription analysis and genome annotation2002

    • Author(s)
      Clark MS et al.
    • Journal Title

      Genome Res. 13

      Pages: 2747-2753

    • Description
      「研究成果報告書概要(欧文)」より
  • [Book] "トラフグの全ゲノム解析はなぜ行われたか-データベースの値打ちと魚類ゲノム科学の新展開"海洋生命系のダイナミクス・シリーズ 第2巻 海洋生物の機能 生命は海にどう適応しているか(竹井祥郎編)2005

    • Author(s)
      池田大介ら
    • Total Pages
      160-182
    • Publisher
      東海大学出版会
    • Description
      「研究成果報告書概要(和文)」より
  • [Book] "トラフグを中心に魚類体表の生体防御機構をさぐる"海洋生命系のダイナミクス・シリーズ 第2巻 海洋生物の機能 生命は海にどう適応しているか(竹井祥郎編)2005

    • Author(s)
      鈴木譲ら
    • Total Pages
      137-147
    • Publisher
      東海大学出版会
    • Description
      「研究成果報告書概要(和文)」より

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Published: 2008-05-27  

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