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2007 Fiscal Year Final Research Report Summary

Simultaneous identification system for fisheries animals using ITS chip

Research Project

Project/Area Number 17380126
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Fisheries chemistry
Research InstitutionFisheries Research Agency

Principal Investigator

CHO Naritoshi  Fisheries Research Agency, National Researth Institute Fisheries Science, 研究室長 (70360766)

Co-Investigator(Kenkyū-buntansha) TAKEYAMA Haruko  Waseda University, 理工学術院, 教授 (60262234)
OOHATA Ichiro  National Researth Institute Fisheries Science, 中央水産研究所・水産遺伝子解析センター, 上席研究員 (40371843)
UENO Yasuhiro  Tohoku Regional Fisheries Research Institute, 東北区水産研究所・資源生態研究室, 研究室長 (50371810)
YOSHIMURA Taku  Seikai Regional Fisheries Researth Institute, 西海区水産研究所・沿岸資源研究室, 研究室長 (90371997)
Project Period (FY) 2005 – 2007
Keywordssimultaneous identification / multi-species / fisheries animlas / ITS region / DNA chip
Research Abstract

Sample size collected from wide variety of marine animals reached to 1,000 species at the end of 2007. Among them, we attempted to amplify the homologous. ITS1 region in 775 individuals from 600 species and observed successful single fragment amplification in 688 individuals. We determined entire or partial nucleotide sequences of 315 individuals from 273 species. All these sequences determined have been deposited to the database. We investigated the length and GC content of the ITS1 region that may have significant correlation with hybridization efficiency. No species was found to have ITS1shorter than 100 bp. In general, ITS1 of vertebrate(fishes) was GC richer(56.8 to 78 %) and longer(318 to 2300 bp) than invertebrates. Specifically, gelatinous animal(Cnidana and Ctenophora) were observed to have shorter ITS1(118 to 422 bp) with lower GC content(35.8 to 61.7 %) than the other animal taxa. Mollusca and Crustacea were diverse group in ITSl size, ranging from 108 to 1118 bp for the former and from 182 to 1613 bp for the later. No apparent relationship between the length and GC content was observed. The prototype chip designed last year was spotted with PCR products, and we could not get better discrimination results. In this year, we designed oligo probes(c. a. 60 nt) from 200 species, which do not share any similar nucleotide sequences one another, and these probes were spotted on the chip. Hybridization experiment using PCR products with this chip indicated the efficiency for species-specific hybridization was considerably improved.

  • Research Products

    (20 results)

All 2008 2007 Other

All Journal Article (14 results) (of which Peer Reviewed: 6 results) Presentation (4 results) Book (2 results)

  • [Journal Article] Preliminary observation on length and GC content variation in the ribosomal first internal transcribed spacer(ITS1) of marine animals.2008

    • Author(s)
      Chow, S., Ueno, Y., Toyokawa, M., Oohara, I. and Takeyama, H
    • Journal Title

      Marine Biotechnology (in print)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Efficient analysis for natural diet of marine animal larvae using peptide nucleic acid(PNA)-mediated PCR clamping.2008

    • Author(s)
      Takeyama, H., Suzuki, S., Yokouchi, T., Matsunaga, T. and Chow, S.
    • Journal Title

      Marine Biotechnology (in print)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Molecular evidence for synonymy of the genera Moroteuthis and Onykia and identification of their paralarvae from northern Hawaiian waters.2007

    • Author(s)
      Wakabayashi, T., Kubodera, T., Sakai, M., Ichii, T.and Chow, S.
    • Journal Title

      J.Mar.Biol.Ass.U.K. 87

      Pages: 959-965

    • Description
      「研究成果報告書概要(和文)」より
    • Peer Reviewed
  • [Journal Article] Boundary between the north and south Atlantic populations of the swordfish(Xiphias gladius)inferred by a single nucleotide polymorphism at calmodulin gene intron.2007

    • Author(s)
      Chow, S., Clarke, S., Nakadate, M.and Okazaki, M.
    • Journal Title

      Marine Biology 152

      Pages: 87-93

    • Description
      「研究成果報告書概要(和文)」より
    • Peer Reviewed
  • [Journal Article] High-throughput SNP detection using nano-scale engineered biomagnetite.2007

    • Author(s)
      Matsunaga, T., Maruyama, K., Takeyama, H., Katoh, T.
    • Journal Title

      Biosens.Bioelectron. 22

      Pages: 2315-2321

    • Description
      「研究成果報告書概要(和文)」より
    • Peer Reviewed
  • [Journal Article] Fully automated immunoassay for detection of prostate-specific antigen using nano-magnetic beads and micro-polystyrene bead composites,'Beads on Beads'.2007

    • Author(s)
      Matsunaga, T., Maeda, Y., Yoshino, T., Takeyama, H., Takahashi, M., Ginya, H., Asahina, J.and Tajima, H.
    • Journal Title

      Anal.Chim.Acta 597

      Pages: 331-339

    • Description
      「研究成果報告書概要(和文)」より
    • Peer Reviewed
  • [Journal Article] Molecular evidence for synonymy of the genera Moroteuthis and Onykia and identification of their paralarvae from northern Hawaiian waters.2007

    • Author(s)
      Wakabayashi, T., Kubodera, T., Sakai, M., Ichii, T. and Chow, S.
    • Journal Title

      J. Mar. Biol. Ass. U.K. 87

      Pages: 959-965

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Boundary between the north and south Atlantic populations of the swordfish(Xiphias gladius) inferred by a single nucleotide polymorphism at calmodulin gene intron.2007

    • Author(s)
      Chow, S., Clarke, S., Nakadate, M. and Okazaki, M.
    • Journal Title

      Marine Biology 152

      Pages: 87-93

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] High-throughput SNP detection using nano-scale engineered biomagnetite.2007

    • Author(s)
      Matsunaga, T., Maruyama, K., Takeyama, H., Katoh, T.
    • Journal Title

      Biosens. Bioelectron. 22

      Pages: 2315-2321

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Fully automated immunoassay for detection of prostate-specific antigen using nano-magnetic beads and micro-polystyrene bead composites, Beads on Beads.2007

    • Author(s)
      Matsunaga, T., Maeda, Y., Yoshino, T., Takeyama, H., Takahashi, M., Ginya, H., Asahina, J. and Tajima, H
    • Journal Title

      Anal. Chim. Acta 597

      Pages: 331-339

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] All about tuna 「Phylogenetic relationships among tuna species inferred from DNA analysis」2007

    • Author(s)
      Chow, S.
    • Journal Title

      Illustrated Book for Fisheries Products, Supplement 1

      Pages: 26-28

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] All about tuna 「Species identification using DNA for morphologically similar species」2007

    • Author(s)
      Chow, S.
    • Journal Title

      Illustrated Book for Fisheries Products, Supplement 1

      Pages: 145

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Preliminary observation on length and GC content variation in the ribosomal first internal transcribed spacer(ITS1)of marine animals.

    • Author(s)
      Chow, S., Ueno, Y., Toyokawa, M., Oohara, I.and Takeyama, H
    • Journal Title

      Marine Biotechnology (印刷中)

    • Description
      「研究成果報告書概要(和文)」より
    • Peer Reviewed
  • [Journal Article] Efficient analysis for natural diet of marine animal larvae using peptide nucleic acid(PNA)-mediated PCR clamping.

    • Author(s)
      Takeyama, H., Suzuki, S., Yokouchi, T., Matsunaga, T.and Chow, S.
    • Journal Title

      Marine Biotechnology (印刷中)

    • Description
      「研究成果報告書概要(和文)」より
    • Peer Reviewed
  • [Presentation] マルチプレックスPCRを用いたメバチ産地判別迅速化の試み.2008

    • Author(s)
      野原健司・仙波靖子・鈴木伸明・張 成年・岡本浩明
    • Organizer
      平成20年度日本水産学会春季大会
    • Place of Presentation
      静岡
    • Year and Date
      2008-03-30
    • Description
      「研究成果報告書概要(和文)」より
  • [Presentation] An attempt to identify origin of bigeye tuna Thunnus obesus using multi-plex PCR.2008

    • Author(s)
      Nohara, K., Senba, Y., Suzuki, N., Chow, S. and Okamoto, H.
    • Organizer
      The Japanese Society of Fisheries Science
    • Year and Date
      2008-03-30
    • Description
      「研究成果報告書概要(欧文)」より
  • [Presentation] RFLP/SSCP法を用いたクロマグロThunnus orientalisのmtDNA多様性解析2007

    • Author(s)
      鈴木伸明・升間主計・田邉智唯・青沼佳方・張 成年
    • Organizer
      平成19年度日本水産学会秋季大会
    • Place of Presentation
      函館
    • Year and Date
      2007-09-27
    • Description
      「研究成果報告書概要(和文)」より
  • [Presentation] mtDNA diversity evaluation in the northern bluefin tuna Thunnus orientaris using RFLP/SSCP.2007

    • Author(s)
      Suzuki, N., Masuma, S., Tanabe, T., Aonuma, Y. and Chow, S.
    • Organizer
      The Japanese Society of Fisheries Science
    • Year and Date
      2007-09-27
    • Description
      「研究成果報告書概要(欧文)」より
  • [Book] 食材魚貝大図鑑 別巻1 まぐろの全て 「マグロの類縁関係-DNAに基づく分析から」2007

    • Author(s)
      張 成年
    • Total Pages
      3
    • Publisher
      平凡社
    • Description
      「研究成果報告書概要(和文)」より
  • [Book] 食材魚貝大図鑑 別巻1 まぐろの全て 「DNAを使った種判別-外見でわからないものを判定する」2007

    • Author(s)
      張 成年
    • Total Pages
      1
    • Publisher
      平凡社
    • Description
      「研究成果報告書概要(和文)」より

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Published: 2010-02-04  

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