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Development of method for identification of whale species using transposable elements

Research Project

Project/Area Number 09559004
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section展開研究
Research Field 広領域
Research InstitutionTOKYO INSTITUTE OF TECHNOLOGY

Principal Investigator

OKADA Norihiro  Faculty of Bioscience and Biotechnology, Tokyo Intitute of Technology Professor, 生命理工学部, 教授 (60132982)

Co-Investigator(Kenkyū-buntansha) GTO Mutsuo  Genetic Ecology Section, The Institute of Cetacean Research, 研究部生態研究室, 主任研究員
OHSHIMA Kazuhiko  Faculty of Bioscience and Biotechnology, Tokyo Intitute of Technology Lecturer, 生命理工学部, 講師 (60282852)
Project Period (FY) 1997 – 1998
Project Status Completed (Fiscal Year 1998)
Budget Amount *help
¥13,300,000 (Direct Cost: ¥13,300,000)
Fiscal Year 1998: ¥4,200,000 (Direct Cost: ¥4,200,000)
Fiscal Year 1997: ¥9,100,000 (Direct Cost: ¥9,100,000)
Keywordsretroposon / DNA / whale / SINE / PCR / genome
Research Abstract

Based on the presence or the absence of a SINE (Short inteispersed repetitive element) sequence at or sites in a genome, we attemped to detect genetic differences, using flanking PCR, among different species of whales The obtained results showed that some of the isolated loci have insertion of a SINE sequence which is specific to one of the families or superfamilies of whales as follows (the names of the loci were shown in parentheses) Delphinoidea (the locus Mago19), Iniidae (the locus Amz11), Ziphiidae (the loci Tuti24, 28, and 35), Physeteridae (the loci Spm4, 9, 13, 15, and 49), and Balaenopteridae (the Loci Hump20 and 203) In addition to these, we also isolated Spm2, 10, and 14, all of which exhibit insertions unique to the sperm whale By a single PCR experiment for detection of the loci above, it is possible to identify those groups of whales clearly Moreover, we isolated other 23 loci (their names are not shown here) that exhibited sharing of a SINE sequence among several groups of the whales Observation of several such loci in combination makes it possible to identify groups of the whales in more detail The present results suggest, from the view point of convenient and accurate identification of whale families, that analysis of SINE insertion is quite efficient In the future, it is expected to become possible to identify SINE-inserted loci that can be used foi identification of species of whales

Report

(3 results)
  • 1998 Annual Research Report   Final Research Report Summary
  • 1997 Annual Research Report
  • Research Products

    (15 results)

All Other

All Publications (15 results)

  • [Publications] Terai, Y., Takahasi, K.and Okada, N.: "SINE cousins : The 3'-end tails of the two oldest and distantly related families of SINEs are desecnded from the 3' ends of LINEs with the same genealogical origin" Mol.Biol.Evol.in perss.

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Hamada, M., Takasaki, N., Reist, J.D., Decicco, A.L., Goto, A.and Okada, N.: "Detection of the on-going sorting of ancestrally polymorphic SINEs towardds fixation or loss in populations of two spccies of charr during speciation." Genetics. 150. 301-311 (1998)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Simimamura, M., Yasue, H., Ohshima, K, Abe, H., Kato, H., Kishiro, T., Goto, M., Munechika, I.and Okada, N.: "Molecular evidence that whales from a clade within even-toed ungulates." Nature. 388. 666-670 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Okada, N., Hamada, M., Ogiwara, I.and Ohshima, K.: "SINEs and LINEs share common 3' sequences : a review" GENE. 205. 229-243 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Kajikawa, M., Ohshima, K.and Okada, N.: "Determination of the entire scqucnce of turtle CR1 : the first open reading frame of the turtle CR1 element encodes a protein with a novel zinc finger motif." Mol.Biol.Evol.14. 1206-1217 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Takahashi, K., Terai, Y., Nishida, M.and Okada, N.: "A novel family of short interspersedd repetitive elements (SINEs) from cichlids : the patterns of insertion of SINEs at orthologous loci support the proposed monophyly of four major groups of cichlid fishes in Lake Tanganyika" Mol.Biol.Evol.15. 391-407 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Hamada, M., Kido, Y., Himberg, M., Hasegawa, sequences M.and Okada, N.: "A newly isolated family of short interspersed repetitive elements (SINEs) in coregonid fishes (whitefishes) with that are almost identical to those of the Sma I family of repcats : possible evidence for the horizontal transfer of SINEs" Genetics. 146. 355-367 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Terai, Y., Takahashi, K.and Okada, N.: "SINE cousins : The 3'-end tails of the two oldest and distantly related families of SINEs are descended from the 3'ends of LINEs with the same genealogical origin." Mol.Biol.Evol.(in press). (1999)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Hamada, M., Takasaki, N., Reist, J.D., Decicco, A.L., Goto, A.and Okada, N.: "Detection of the on-going sorting of ancestrally polymorphic SINEs towards fixation or loss in populations of two species of charr during speciation." Genetics. 150. 301-311 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Simimamura, M., Yasue, H., Ohshima, K., Abe, H., Kato, H., Kishiro, T., Goto, M., Munechika, I.and Okada, N.: "Molecular evidence that whales form a clade within even-toed ungulates." Nature (a letter). 388. 666-670 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Okada, N., Hamada, M., Ogiwara, I.and Ohshima, K.: "SINEs and LINEs share common 3'sequences : a review." GENE. 205. 229-243 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Kajikawa, M., Ohshima, K.and Okada, N.: "Determination of the entire sequence of turtle CR1 : the first open reading frame of the turtle CR1 element encodes a protein with a novel zinc finger motif." Mol.Biol.Evol.14. 1206-1217 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Takahashi, K., Terai, Y., Nishida, M.and Okada, N.: "A novel family of short interspersed repetitive elements (SINEs) from cichlids : the patterns of insertion of SINEs at orthologous loci support the proposed monophyly of four major groups of cichlid fishes in Lake Tanganyika." Mol.Biol.Evol.15. 391-407 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Hamada, M., Kido, Y., Himberg, M., Hasegawa, M.and Okada, N.: "A newly isolated family of short interspersed repetitive elements(SINEs)in coregonid fishes(whitef : shes)with sequences that are almost identical to those of the Sma I family of repeats : possible evidence for the horizontal transfer of SINEs" Genetics. 146. 355-367 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1998 Final Research Report Summary
  • [Publications] Masaki Kajikawa,et al: "Determination of the entire sequence of turtle CR1:the first open reading frame of the turtle CR1 element encodes a protein with a novel zinc finger motif" Mol.Biol.Evol.(in press). (1998)

    • Related Report
      1997 Annual Research Report

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Published: 1997-04-01   Modified: 2016-04-21  

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