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2007 Fiscal Year Annual Research Report

魚類多様性の進化ダイナミクス:網羅的大規模分子系統樹からのアプローチ

Research Project

Project/Area Number 19207007
Research InstitutionThe University of Tokyo

Principal Investigator

西田 睦  The University of Tokyo, 海洋研究所, 教授 (90136896)

Co-Investigator(Kenkyū-buntansha) 馬渕 浩司  東京大学, 海洋研究所, 助教 (50401295)
宮 正樹  千葉県立中央博物館, 動物学研究科, 上席研究員 (30250137)
Keywords進化 / 魚類 / ミトコンドリア / 多様性 / 分子系統
Research Abstract

平成19年度は、スズキ類(Percomorpha)を中心にミトコンドリア(ミト)ゲノム全長塩基配列のデータを集秘した一方で、スズキ類内部の部分的な系統解析において、魚類系統学上非常に重要な成果を二つ得た。その一つは、ベラ亜目魚類の系統学的実体を解明した成果である(Mabuchi et al.2007)。このグループは、サンゴ礁域で多様な食性の種へ分化したベラ類と、アフリカの古代湖で適応放散したシクリッド類を含んでいる。これらは、喉に特殊な顎(咽頭顎)を共通して持つことで共通の祖先から進化したグループとされてきたが、ミトゲノムに基づく系統解析を行ったところ、ベラ類とシクリッド類は、スズキ類の内部で全く独立に進化したことが判明した。この成果は、「ベラ亜目」の分類学的再検討の必要性を示しているだけでなく、「特殊な咽頭顎の進化は、様々な食性への特殊化を可能にしたキーイノベーションである」という有名な進化仮説を歴史的な再現性の点で支持するものであり、進化生物学上も非常に重要な成果である。もう一つの成果は、トゲウオ目の系統学的実体を解明した成果である(Kawahara et al.2007)。このグループは、モデル実験生物として重要なトゲウオを含むトゲウオ亜目と、タツノオトシゴやウミテングを含むヨウジウオ亜目とから構成されている。これらに含まれる全ての科の代表について、ミトゲノムに基づく系統解析を行ったところ、トゲウオ亜目とヨウジウオ亜目はスズキ類内で全く独立に進化したものであることが判明した。この成果は、実験生物として重嬰なトゲウオの進化を考える上で非常に重要な成果である。なお、平成19年度には、新型シーケンサーを用いた新しい塩基配列決定法の応用について検討を行ったが、現時点のスペックでは、コスト上もデータの粘度の上でも我々の研究に対しては有効でないと判断した。

  • Research Products

    (62 results)

All 2008 2007

All Journal Article (27 results) (of which Peer Reviewed: 27 results) Presentation (34 results) Book (1 results)

  • [Journal Article] Mitochondrial DNA analysis reveals cryptic large-scale invasion of non-native genotypes of common carp Cyprinus caprio in Japan2008

    • Author(s)
      Mabuchi, K., H. Senou, M. Nishida
    • Journal Title

      Molecular Ecology 17

      Pages: 796-809

    • Peer Reviewed
  • [Journal Article] Isolation and characterization of microsatellite loci in the cichlid fish in Lake Victoria, Haplochlomis chilotes2008

    • Author(s)
      Maeda, K., H. Takeshima, S. Mizoiri, N. Okada, M. Nishida, H. Tachida
    • Journal Title

      Molecular Ecology Notes 8

      Pages: 428-430

    • Peer Reviewed
  • [Journal Article] Isolation and characterisation of 39 microsatellite loci in the endangered Japanese loach Leptobotia curta2008

    • Author(s)
      Watanabe, K., H. Takeshima, A. Iwata, T. Abe, K. Uehara, R. Kakioka, D. Kihira, M. Nishida
    • Journal Title

      Molecular Ecology Notes 8

      Pages: 145-148

    • Peer Reviewed
  • [Journal Article] Interrelationships of the 11 gasterosteiform families (sticklebacks, pipefishes, and their relatives) : a new pespective based on whole mitogenome sequences from 75 higher teleosts2008

    • Author(s)
      Kawahara, R., M. Miya, K. Mabuchi, S. Lavoue, J. G. Inoue, T. P. Satoh, A. Kawaguchi, M. Nishida
    • Journal Title

      Molecular Phylogenetics and Evolution 46

      Pages: 224-236

    • Peer Reviewed
  • [Journal Article] Monophyly, phylogenetic position and inter-familial relationships of the Alepocephaliformes (Teleostei) based on whole mitogenome sequences2008

    • Author(s)
      Lavoue, S., M. Miya, J. Y. Poulsen, P. R. Moller, M. Nishida
    • Journal Title

      Molecular Phylogenetics and Evolution 47

      Pages: 1111-1121

    • Peer Reviewed
  • [Journal Article] Heterotypy in N-terminal region of Growth/Differentiation Factor 5 (GDF5) mature protein during evolution of teleosts2008

    • Author(s)
      Fujimura, K., Y. Terai, N. Ishiguro, M. Miya, M. Nishida, N. Okada
    • Journal Title

      Molecular Biology and Evolution 25

      Pages: 797-800

    • Peer Reviewed
  • [Journal Article] The phylogenetic position of an undescribed paedomorphic clupeiform : Mitogenomic evidence2008

    • Author(s)
      Lavoue, S., M. Miya, A. Kawaguchi, T. Yoshino, M. Nishida
    • Journal Title

      Ichthyological Research 55

      Pages: 328-334

    • Peer Reviewed
  • [Journal Article] A new perspective on phylogeny and evolution of tetraodontiform fishes (Pisces : Acanthopterygii) based on whole mitochondrial genome sequences : Basal ecological diversification?2008

    • Author(s)
      Yamanoue, Y., M. Miya, K. Matsuura M. Katoh, H. Sakai, M. Nishida
    • Journal Title

      BMC Evolutionary Biology 8

      Pages: 212

    • Peer Reviewed
  • [Journal Article] Mitogenomic evaluation of the historical biogeography of cichlids toward reliable dating of teleostean divergences2008

    • Author(s)
      Azuma, Y., Y. Kumazawa, M. Miya K. Mabuchi, M. Nishida
    • Journal Title

      BMC Evolutionary Biology8

      Pages: 215

    • Peer Reviewed
  • [Journal Article] Isolation and characterization of 15 microsatellite loci for the Japanese gudgeon Sarcocheilichthys variegatus2008

    • Author(s)
      Fujita, S., T. Komiya, H. Takeshima, K. Watanabe, M. Nishida
    • Journal Title

      Molecular Ecology Resources 8

      Pages: 1335-1337

    • Peer Reviewed
  • [Journal Article] Interrelationships of Atherinomorpha (medakas, flyingfishes, killifishes, silversides, and their relatives) : The first evidence based on whole mitogenome sequences2008

    • Author(s)
      Setiamarga, D., H. E., M. Miya, Y. Yamanoue, K. Mabuchi, T. P. Satoh, J. G Inoue, M. Nishida
    • Journal Title

      Molecular Phylogenetics and Evolution 49

      Pages: 598-605

    • Peer Reviewed
  • [Journal Article] Evolutionary patterns and selective pressures of odorant/pheromone receptor gene families in teleost fishes2008

    • Author(s)
      Hashiguchi, Y., Y. Furuta, M. Nishida
    • Journal Title

      PLoS ONE 3

      Pages: e4083

    • Peer Reviewed
  • [Journal Article] Independent evolution of the specialized pharyngeal jaw apparatus in cichlid and labrid fishes2007

    • Author(s)
      Mabuchi, K., M. Miya, Y. Aazuma, M. Nishida
    • Journal Title

      BMC Evolutionary Biology 7

      Pages: 10

    • Peer Reviewed
  • [Journal Article] Phylogenetic relationships among anchovies, sardines, herrings and their relatives (Clupeiformes), inferred from whole mitogenome sequences2007

    • Author(s)
      Lavoue, S., M. Miya, K. Saitoh, N. B. Ishiguro, M. Nishida
    • Journal Title

      Molecular Phylogenetics and Evolution 43

      Pages: 1096-1105

    • Peer Reviewed
  • [Journal Article] DNA sequences identify numerous cryptic species of the vertebrate : A lesson from the gobioid fish Schindleria2007

    • Author(s)
      Kon, T., T. Yoshino, T. Mukai, M. Nishida
    • Journal Title

      Molecular Phylogenetics and Evolution 44

      Pages: 53-62

    • Peer Reviewed
  • [Journal Article] Post-stocking dynamics of landlocked ayu traced by a mitochondrial SNP marker. (in Japanese with English abstract)2007

    • Author(s)
      Iwata, H., H. Takeshima, Y. Tago, K. Watanabe, K. Iguchi, M. Nishida
    • Journal Title

      Nippon Suisann Gakkaishi 73

      Pages: 278-283

    • Peer Reviewed
  • [Journal Article] Comparative phylogeography of bagrid catfishes in Taiwan2007

    • Author(s)
      Watanabe, K., N. Jang-Liaw, C. Zhang, S. Jeon, M. Nishida
    • Journal Title

      Ichthyological Research 254

      Pages: 253-261

    • Peer Reviewed
  • [Journal Article] Phylogenetic position of tetraodontiform fishes within the higher teleosts : Bayesian inferences based on 44 whole mitochondrial genome sequences2007

    • Author(s)
      Yamanoue, Y., M, Miya, K. Matsuura, N. Yagishita, K. Mabuchi, H. Sakai, M. Katoh, M. Nishida
    • Journal Title

      Molecular Phylogenetics and Evolution 45

      Pages: 89-101

    • Peer Reviewed
  • [Journal Article] Diversification and adaptive evolution of putative sweet taste receptors in threespine stickleback2007

    • Author(s)
      Hashiguchi, Y., Y. Furuta, R. Kawahara, M. Nishida
    • Journal Title

      Gene 396

      Pages: 170-179

    • Peer Reviewed
  • [Journal Article] Mitochondrial genome and a nuclear gene indicate a novel phylogenetic position of deep-seatube-eye fish (Stylephoridae)2007

    • Author(s)
      Miya, M., N. I. Holcroft, T. P. Satoh, M. Yamaguchi, M. Nishida, E. O. Wiley
    • Journal Title

      Ichthyological Research 54

      Pages: 323-332

    • Peer Reviewed
  • [Journal Article] Phylogenetic relationships and natural hybridization in rabbitfishes (Teleostei : Siganidae) inferred from mitochondrial and nuclear DNA analyses2007

    • Author(s)
      Kuriiwa, K., N. Hanzawa, T. Yoshino, S. Kimura, M. Nishida
    • Journal Title

      Molecular Phylogenetics and Evolution 45

      Pages: 69-80

    • Peer Reviewed
  • [Journal Article] Molecular mechanisms of adaptation and evolution of odor perception in fishes with special reference to the evolutionary dynamics of chemosensory receptor gene families. [In Japanese with English Abstract]2007

    • Author(s)
      Hashiguchi, Y. M. Nishida
    • Journal Title

      Japanese Journal of Ichthyology 54

      Pages: 105-120

    • Peer Reviewed
  • [Journal Article] Evolution of trace amine-associated receptor (TAAR) gene family in vertebrates : lineage-specific expansions and degradations of a second class of vertebrate chemosensory receptors expressed in the olfactory epithelium2007

    • Author(s)
      Hashiguchi, Y. M. Nishida
    • Journal Title

      Molecular Biology and Evolution 24

      Pages: 2099-2107

    • Peer Reviewed
  • [Journal Article] Phylogenetic position of a whale-fall lancelet (Cephalochordata) inferred from whole mitochondrial genome sequences2007

    • Author(s)
      Kon, T., M. Nohara, Y. Yamanoue, Y. Fujiwara, M. Nishida, T. Nishikawa
    • Journal Title

      BMC Evolutionary Biology 7

      Pages: 127

    • Peer Reviewed
  • [Journal Article] Evolution of feeding specialization in Tanganyikan scale-eating cichlids : a molecular phylogenetic approach2007

    • Author(s)
      Takahashi, R., K. Watanabe, M. Nishida, M. Hori
    • Journal Title

      BMC Evolutionary Biology 7

      Pages: 195

    • Peer Reviewed
  • [Journal Article] Post-duplication charge evolution of phosphoglucose isomerases in teleost fishes through weak selection on many amino acids2007

    • Author(s)
      Sato, Y. M. Nishida
    • Journal Title

      BMC Evolutionary Biology 7

      Pages: 204

    • Peer Reviewed
  • [Journal Article] Extensive lineage-specific gene duplication and evolution of the spiggin multi-gene family in stickleback2007

    • Author(s)
      Kawahara, R., M. Nishida
    • Journal Title

      BMC Evolutionary Biology 7

      Pages: 209

    • Peer Reviewed
  • [Presentation] Mitogenomic Evaluation of historical biogeography of cichlids toward reliable dating of teleostean divergences2008

    • Author(s)
      Azuma, Y., Y. Kumazawa, M. Miya, K. Mabuchi, M. Nishida
    • Organizer
      Society for Molecular Biology and Evolution
    • Place of Presentation
      Barcelona, Spain
    • Year and Date
      20080600
  • [Presentation] Significance of intensive and extensive genetic analyses of natural populatins in evolution and conservation2008

    • Author(s)
      Nishida, M.
    • Organizer
      International Workshop on Sustainalbe Yield and Population Conservation for Marine Organisms form the Point of View of Genetic Resources
    • Place of Presentation
      Sendai
    • Year and Date
      20080300
  • [Presentation] Evolutionary history of fishes : An Overview based on 327 whole mitogenome sequences2008

    • Author(s)
      Miya, M., M. Nishida
    • Organizer
      International Symposium of Systematics and Diversity of Fishes
    • Place of Presentation
      Tokyo
    • Year and Date
      20080300
  • [Presentation] Rapid radiation and speciation of Takifugu species in marine waters of East Asia : Another use of the fugu, Takifugu rubripes as a model2008

    • Author(s)
      Yamanoue, Y., M. Miya, H. Sakai, K. Matsuura, S. Miyazawa, N. Miyamoto, M. Nishida
    • Organizer
      International Symposium of Systematics and Diversity of Fishes
    • Place of Presentation
      Tokyo
    • Year and Date
      20080300
  • [Presentation] Higher-level relation ships of the Otocephala (Teleostei) inferred form Whole mitogenome sequences2008

    • Author(s)
      Lavoue, S., M. Miya, M. Nishida
    • Organizer
      International Symposium of Systematics and Diversity of Fishes
    • Place of Presentation
      Tokyo
    • Year and Date
      20080300
  • [Presentation] トラフグ・インスリン様成長因子1および2遺伝子のcDNAクローニング2008

    • Author(s)
      古川聡史, 武島弘彦, 西田睦, 渡部終五
    • Organizer
      日本水産学会春季大会
    • Place of Presentation
      静岡
    • Year and Date
      20080300
  • [Presentation] Trophic segregation between native and introduces strains of the common carp (Cyprinus carpio) in Japan : insights from molecular and stable isotape analyses2007

    • Author(s)
      Matsuzaki, S. S., K. Mabuchi, N. Takamura, M. Nishida, B. Hicks, I. Washitani
    • Organizer
      Special Symposium : Biology of Cypriniformes
    • Place of Presentation
      Thailand
    • Year and Date
      20071100
  • [Presentation] Higher-level relationships of the Otocephala based on whole mitogenomes sequences : implications for the origin of the Otophysi and Cypriniformes2007

    • Author(s)
      Lavoue, S., M. Miya, M. Nishida
    • Organizer
      Special Symposium : Biology of Cypriniformes
    • Place of Presentation
      Thailand
    • Year and Date
      20071100
  • [Presentation] Resolving power of mitochondrial genomic data for interrelationships among cypriniform fishes (Actinopterygii : Ostariophysi)2007

    • Author(s)
      Saitoh, K., T. Sado, M. H. Doosey, H. L. Bart, Jr., R. L. Mayden, M. Nishida, M. Miya
    • Organizer
      Special Symposium : Biology of Cypriniformes
    • Place of Presentation
      Thailand
    • Year and Date
      20071100
  • [Presentation] Molecular phylogeny-based approach to evolution of fishes.2007

    • Author(s)
      Nishida, M.
    • Organizer
      Asia-Africa Evolution Meeting
    • Place of Presentation
      Chiba
    • Year and Date
      20071100
  • [Presentation] Diversification and adaptive evolution of T1R-type taste recepetr genes in threespine sticklebac2007

    • Author(s)
      Hashiguchi, Y., M. Nishida
    • Organizer
      Asia-Africa Evolution Meeting
    • Place of Presentation
      Chiba
    • Year and Date
      20071100
  • [Presentation] Patterns of diversification in modern ray-finned fishes : An overview based on 327 whole mitogenome sequences2007

    • Author(s)
      Miya, M., M. Nishida
    • Organizer
      International Symposium on "The Origin and Evolution of Natural Diversity"
    • Place of Presentation
      Sapporo
    • Year and Date
      20071000
  • [Presentation] Diversification and adaptative evolution of T1R-type receptor genes in threespine stickleback.2007

    • Author(s)
      Hashiguchi, Y., M. Nishida
    • Organizer
      International Symposium on "The Origin and Evolution of Natural Diversity"
    • Place of Presentation
      Sapporo
    • Year and Date
      20071000
  • [Presentation] Concluding remarkds2007

    • Author(s)
      Nishida, Mutsumi
    • Organizer
      International Symposium on "The Origin and Evolution of Natural Diversity"
    • Place of Presentation
      Sapporo
    • Year and Date
      20071000
  • [Presentation] ミトコンドリアゲノム全長配列から推定されたソコダラ科魚類の系統関係2007

    • Author(s)
      佐藤崇, 宮正樹, 遠藤広光, 西田睦
    • Organizer
      日本魚類学会年会
    • Place of Presentation
      札幌
    • Year and Date
      20071000
  • [Presentation] 日本在来型コイの核ゲノムマーカーによる識別2007

    • Author(s)
      馬渕浩司, 瀬能宏, 西田睦
    • Organizer
      日本魚類学会年会
    • Place of Presentation
      札幌
    • Year and Date
      20071000
  • [Presentation] イトヨ味覚受容体遺伝子T1R2の著しい多様化とその起源について2007

    • Author(s)
      橋口康之, 西田睦
    • Organizer
      日本魚類学会年会
    • Place of Presentation
      札幌
    • Year and Date
      20071000
  • [Presentation] コイ目魚類の大系統解明プロジェクト(Cypriniformes Tree of Life): その進展と成果2007

    • Author(s)
      宮正樹, 佐土哲也, 斎藤憲治, 西田睦
    • Organizer
      日本魚類学会年会
    • Place of Presentation
      札幌
    • Year and Date
      20071000
  • [Presentation] サンゴアイゴに見られる遺伝的・形態的2型2007

    • Author(s)
      栗岩薫, 西田睦, 松浦啓一
    • Organizer
      日本魚類学会年会
    • Place of Presentation
      札幌
    • Year and Date
      20071000
  • [Presentation] 中央太平洋産シラスウオ族魚類の分子系統解析2007

    • Author(s)
      昆健志, 吉野哲夫, 西田睦
    • Organizer
      日本魚類学会年会
    • Place of Presentation
      札幌
    • Year and Date
      20071000
  • [Presentation] 沖縄島キバラヨシノボリのミトコンドリアゲノム全塩基配列の決定と島嶼間における遺伝的差異の検討2007

    • Author(s)
      川口亮, 西田睦, 吉野哲夫
    • Organizer
      日本魚類学会年会
    • Place of Presentation
      札幌
    • Year and Date
      20071000
  • [Presentation] Molecular systematics of the deep-sea alepocephaliform fishes (Teleostei) based on whole mitogenome sequences2007

    • Author(s)
      Lavoue, S., M. Miya, J. Poulsen, P. Moller, M. Nishida
    • Organizer
      日本魚類学会年会
    • Place of Presentation
      札幌
    • Year and Date
      20071000
  • [Presentation] 魚類の進化を探る-分子系統枠からのアプローチ2007

    • Author(s)
      西田睦
    • Organizer
      京都大学生態学研究センターセミナー
    • Place of Presentation
      大津市
    • Year and Date
      20070900
  • [Presentation] ダム湖定着に成功したアユの分子生態特性2007

    • Author(s)
      武島弘彦, 清水孝昭, 仁部玄通, 西田睦, 井口恵一朗
    • Organizer
      日本応用生態工学会
    • Place of Presentation
      名古屋市
    • Year and Date
      20070900
  • [Presentation] Evolutionary history of fishes : An overview based on 1000 whole mitochondrial genome sequences2007

    • Author(s)
      Miya, M., M. Nishida
    • Organizer
      The Second International Barcode of Life Conference
    • Place of Presentation
      Taipei
    • Year and Date
      20070900
  • [Presentation] 日本周辺に分布するシオダマリミジンコ Tigriopus laponicus 集団の遺伝的構造解析2007

    • Author(s)
      昆健志, 宮崎亜紀子, 山田創, 西田睦
    • Organizer
      日本学会大会
    • Place of Presentation
      京都
    • Year and Date
      20070800
  • [Presentation] 魚類おける28SrDNA特異的Non-LTR retrotransposon R2の分布と進化2007

    • Author(s)
      瀬戸陽介, 為房潤, 吉武和敏, 小島健司, 尾田正二, 三谷啓志, 朴民根, 西田睦, 藤原晴彦
    • Organizer
      日本進化学会大会
    • Place of Presentation
      京都
    • Year and Date
      20070800
  • [Presentation] 脊椎動物ミトコンドリアゲノムの遺伝子配置の保存性は何によってもたらされているか?2007

    • Author(s)
      佐藤行人, 佐藤崇, 宮正樹, 西田睦
    • Organizer
      日本進化学会大会
    • Place of Presentation
      京都
    • Year and Date
      20070800
  • [Presentation] シクリッドとベラ科魚類にみられる特殊な咽頭顎器官は独立に進化した2007

    • Author(s)
      馬渕浩司, 宮正樹, 東陽一郎, 西田睦
    • Organizer
      日本進化学会大会
    • Place of Presentation
      京都
    • Year and Date
      20070800
  • [Presentation] Cryprinformes Tree of Life : Higher-level Relatinship of the Cypriniformes (Actinopterygii : Ostariophysi) Inferred form 152 Whole Mitochondrial Genome Sequences2007

    • Author(s)
      Miya, M., T. Sado, K. Saitoh, H. L. Bart Jr., M. H. Doosey, I. Doadrio, Y. Keivany, J. Shrestha, R. Zardoya, Mutsumi Nishida, Richard L. Mayden
    • Organizer
      ASIH annual meeting
    • Place of Presentation
      St. Louis, Missouri
    • Year and Date
      20070700
  • [Presentation] Zooplankton community genomics : Census of Marine Zooplankton2007

    • Author(s)
      Machida, R. J., M. Nishida, S. Nishida
    • Organizer
      Metageomics 2007: The Second Annual International Conference on Metagenomics, Carifornia Institute for Telecommunication and Information Technology, University of California
    • Place of Presentation
      San Diego, La Jolla
    • Year and Date
      20070700
  • [Presentation] Patterns of diversifications in modern ray-finned fishes : a mitogenomic overview2007

    • Author(s)
      Miya, M., J. G. Inoue, K. Mabuchi, M. Nishida.
    • Organizer
      Evolution 2007 (Joint Annual Meetings of American Society of Naturalists, Society for the Study of Evolution, and Society of Systematic Biologists)
    • Place of Presentation
      Christchurch, New Zealand
    • Year and Date
      20070600
  • [Presentation] Zooplankton community genomics2007

    • Author(s)
      Machida, R. J., M. Nishida, S. Nishida
    • Organizer
      International Zooplankton Production Symposium
    • Place of Presentation
      Hiroshima
    • Year and Date
      20070600
  • [Presentation] 新規の嗅覚受容体候補としての脊椎動物TAAR遺伝子ファミリーの進化2007

    • Author(s)
      橋口康之, 西田睦
    • Organizer
      日本進化学会大会
    • Place of Presentation
      京都
    • Year and Date
      2007-08-31
  • [Book] 保全遺伝学入門2007

    • Author(s)
      R. Frankham, J. D. Ballou, D. A. Briscoe, 著 西田睦, 監訳, 高橋洋, 山崎裕治, 渡辺勝敏, 訳
    • Total Pages
      751
    • Publisher
      文一総合出版

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Published: 2010-06-11   Modified: 2016-04-21  

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