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High density mapping of BAC end sequences onto medaka linkage groups

Research Project

Project/Area Number 11236210
Research Category

Grant-in-Aid for Scientific Research on Priority Areas

Allocation TypeSingle-year Grants
Review Section Biological Sciences
Research InstitutionHokkaido University (2000-2003)
Okazaki National Research Institutes (1999)

Principal Investigator

TANAKA Minoru  Hokkaido University, Graduate School of Science, Associate Professor, 大学院・理学研究科, 助教授 (80202175)

Project Period (FY) 1999 – 2003
Project Status Completed (Fiscal Year 2003)
Budget Amount *help
¥196,400,000 (Direct Cost: ¥196,400,000)
Fiscal Year 2003: ¥25,500,000 (Direct Cost: ¥25,500,000)
Fiscal Year 2002: ¥25,500,000 (Direct Cost: ¥25,500,000)
Fiscal Year 2001: ¥33,400,000 (Direct Cost: ¥33,400,000)
Fiscal Year 2000: ¥55,800,000 (Direct Cost: ¥55,800,000)
Fiscal Year 1999: ¥56,200,000 (Direct Cost: ¥56,200,000)
Keywordsmedaka / genome / typing / STS marker / physical mapping / linkage / recombination / ゲノム / マッピング / BAC / 連鎖地図 / EST / 生殖腺 / 性 / タイピング / 多型 / マイクロサテライト / SSLP / 染色体地図 / ゲノム解析 / CAリピート / 染色体 / 物理地図 / トランジェニック / GFP
Research Abstract

Physical mapping of medaka chromosomes was constructed based on the length polymorphism between two inbred strains, HNI and AA2. Fluorescent primers designed by BAC end sequences and nucleotide sequences having (CA) repeats were generated. 607 primer sets showing length polymorphism between the two strains were selected and were further used for typing to map onto the medaka linkage groups.
More than 15% of the primers generated showed length polymorphism, confirming the high genomic polymorphism between the two strains.
This information is the first systematic STS markers on medaka genomes and provides a powerful tool for anchoring BAC onto the linkage groups and for walk to the region of interest.
Estimated physical length do not correspond to that estimated by anonymous markers such as RFLP and RAPD. Especially the length of linkage group 23 is estimated to be much longer than that estimated before. Regions of repression of recombination are different between female and male. It is inclined that recombination in male occurs more frequently at the distal regions of the linkages.

Report

(6 results)
  • 2003 Annual Research Report   Final Research Report Summary
  • 2002 Annual Research Report
  • 2001 Annual Research Report
  • 2000 Annual Research Report
  • 1999 Annual Research Report
  • Research Products

    (42 results)

All Other

All Publications (42 results)

  • [Publications] Naruse, K.: "A Medaka Gene Map : The Trace of Ancestral Vertebrate Proto-chromosomes Revealed by Comparative Gene Mapping."Genome Research. (In press). (2004)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kinoshita, M: "Transgenic medaka as a model for fish biology and aquaculture"Aquatic Genomics, Steps Towards a Great Future. (N.Shimizu, T.Aoki, I Hirono, F.Takashima (eds.)). 320-328 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Okubo, K.: "A novel third gpnadotropin-releasing hormone receptor in the medaka Oryzias latipes : evolutionary and functional implications."Gene. 314. 121-131 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Tanaka, M.: "Teleost ovarian carbonyl reductase-like 20b-hydroxysteroid dehydrogenase : potential role in the production of maturation-inducing hormone during final oocyte maturation."Biol.Reprod.. 66. 1498-1504 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Okubo, K.: "Conserved physical linkage of GnRH-R and RBM8 in the medaka and human genome."Biochem.Biophysic.Res.Com.. 293. 327-331 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Yokoi, H.: "Sox9 in a teleost fish, medaka (Oryzias latipes) : evidence for diversified function of sox9 in gonad differentiation."Mol.Reprod.Develop. 63. 5-16 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kondo, M: "Molecular cloning and characterization of DMRT genes from the medaka Oryzias latcpes and the platyfish Xiphophorus maculatus"Gene. 295. 213-222 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Tanaka M.: "Recent progress in the generation of transgenic medaka (Oryzias latipes)"Zoological Science. 18. 615-622 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Wakamatsu Y.: "The see-through medaka : A fish model that is transparent throughout life."Proc.Natl.Acad.Sci.USA. 98. 10046-10050 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Tanaka M.: "Establishment of medaka (Oryzias latipes) transgenic lines with the expression of green fluorescent protein fluorescence exclusively in germ cells : A useful model to monitor germ cells in a live vertebrate."Proc.Natl.Acad.Sci.USA. 98. 2544-2549 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Shinomiya, A.: "The vasa-like gene, olvas, identifies the migration path of primordial germ cells during embryonic body formation stage in the medaka, Oryzias latipes."Develop.Growth Differ.. 42. 317-326 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Guan, G.: "Isoleucine-l5 of rainbow trout carbonyl reductase-like 20b-hydroxysteroid dehydrogenase is critical for coenzyme (NADPH) binding."Proc.Natl.Acad.Sci.USA. 97. 3079-3083 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Shibata, Y.: "Identification and cDNA cloning of Alveolin an extracellular metalloproteinase which induces chorion hardening of medaka (Oryzias latipes) eggs upon fertilization."J.Biol.Chem.. 275. 8349-8354 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Naruse, K., Tanaka.M., Mita, K., Shima, A., Postlethwait, J., Mitani, H.: "A Medaka Gene Map : The Trace of Ancestral Vertebrate Proto-chromosomes Revealed by Comparative Gene Mapping."Genome Research, (in press). (2004)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Okubo, K., Ishii, S., Ishida, J., Mitani, H., Naruse, K., Kondo, M., Shima, A., Tanaka, M.Asakawa, S., Shimizu, N., Aida, K.: "A novel third gpnadotropin-releasing hormone receptor in the medaka Oryzias latipes : veolutionary and functional implications."Gene. 314. 121-131 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Tanaka, M., Nakajin, S., Kobayashi, D., Fukada, S., Guan, G., Todo, T., Senthikumaran, B., Nagahama, Y.: "Teleost ovarian carbonyl reductase-like 20b-hydroxysteroid dehydrogenase : potential role in the production of maturation-inducing hormone during final ooccyte maturation."Biol. Reprod.. 66. 1498-1504 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Okubo, K., Mitani, H., Naruse, K., Kondo, M., Shima, A., Tanaka, M., Aida, K.: "Conserved physical linkage of GnRH-R and RBM8 in the medaka and human genome."Biochem. Biophys. Res. Com.. 293. 327-331 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Yokoi, H., Kobayashi, T., Tanaka, M., Nagahama, Y., Wakamatsu, Y., Takeda, H., Araki, K., Morohashi, K., Ozato, K.: "Sox9 in a teleost fish, medaka (Oryzias latipes) : evidence for diversified function of sox9 in gonad differentiation."Mol. Reprod. Develop.. 63. 5-16 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kondo, M, Froschauer, A, Kitano, A, Nanda, I, Hornung, U, Volff, J-N, Asakawa, S, Mitani, H, Naruse, K, Tanaka, M., Schmid, M, Shimizu, N., Schartl, M., Shima, A.: "Molecular cloning and characterization of DMRT genes from the medaka Oryzias latipes and the platyfish Xiphophorus maculatus"Gene. 295. 213-222 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Tanaka M., Kinoshita M.: "Recent progress in the generation of transgenic medaka (Oryzias latipes)"Zool. Sci.. 18. 615-622 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Wakamatsu Y., Pristyazhnyuk S., Kinoshita M., Tanaka M., Ozato K.: "The see-through medaka : A fish model that is transparent throughout life."Proc. Natl. Acad. Sci. U S A. 98. 10046-10050 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Tanaka M., Kinoshita M., Kobayashi D., Nagahama Y.: "Establishment of medaka (Oryzias latipes) transgenic lines with the expression of green fluorescent protein fluorescence exclusively in germ cells : A usefull model to monitor germ cells in a live vertebrate."Proc. Natl. Acad. Sci. U S A. 98. 2544-2549 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Shinomiya, A., Tanaka, M., Kobayashi, T., Nagahama, Y., Hamaguchi, S.: "The vasa-like gene, olvas, identifies the migration path of primordial germ cells during embryonic body formation stage in the medaka, Oryzias latipes."Develop. Growth Differ.. 42. 317-326 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Guan, G., Todo, T., Tanaka, M., Young, G.Nagahama, Y.: "Isoleucine-15 of rainbow trout carbonyl reductase-like 20b-hydroxysteroid dehydrogenase is critical for coenzyme (NADPH)"Proc. Natl. Acad. Sci. USA. 97. 3079-3083 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Shibata Y, Iwamatsu T, Oba Y, Kobayashi D, Tanaka M, Nagahama Y, Suzuki N: "Suzuki N and Yoshikuni M Identification and cDNA cloning of Alveolin, an extracellular metalloproteinase, which induces chorion hardening of medaka (Oryzias latipes) eggs upon fertilization."J. Biol. Chem.. 275. 8349-8354 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kinoshita, M, Tanaka M.: "Transgenic medaka as a model for fish biology and aquaculture."Aquatic Genomics-Steps Toward a Great Future edited by Shimizu, N., Aoki, T., Hirono, I., and Takashima, F.. 320-328 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Naruse, K., Tanaka, M., Mita, K., Shima, A., Postlethwait, J., Mitani, H.: "A Medaka Gene Map : The Trace of Ancestral Vertebrate Proto-chromosomes Revealed by Comparative Gene Mapping."Genome Research. (in press). (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Okubo, K., Ishii, S., Ishida, J., Mitani, H., Naruse, K., Kondo, M., Shima, A., Tanaka, M., Asakawa, S., Shimizu, N., Aida, K.: "A novel third gonadotropin-releasing hormone receptor in the medaka Oryzias latipes evolutionary and functional implications."Gene. 314. 121-131 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] 田中実, 木下政人, 青木裕美子, 中村修平: "RNA翻訳制御による生殖細胞形成:メダカを中心に"細胞工学. 22(10). 1074-1076 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] 田中実, 木下政人: "メダカの細胞1つ1つを光らせて生殖腺形成機構を解明する -生殖細胞系列特異的にRNA翻訳制御を指示するエレメントがわかった-"化学と生物. 41(5). 210-213 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] 田中実, 友永健士, 木下政人, 若松祐子: "遺伝子機能解析のためのポストゲノム実験動物メダカ"生物物理誌. 43. 93-96 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Kinoshita, M, Tanaka, M.: "Transgenic medaka as a model for fish biology and aquaculture. In Aquatic Genomics : Steps Towards a Great Future. (N.Shimizu, T.Aoki, I.Hirono and F.Takashima (eds.))"9 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Tanaka, M., Nakajin, S., Kobayashi, D., Fukada, S., Guan, G.: "Teleost ovarian carbonyl reductase-like 20β-hydroxysteroid dehydrogenase : potential role in the production of maturation-inducing hormone during final oocyte maturation"Biol. Reprod.. 66. 1498-1504 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Okubo, K., Mitani, H., Naruse, K., Kondo, M., Tanaka, M.: "Conserved physical linkage of GnRH-R and RBM8 in the medaka and human genome"Biochem. Biophysic. Res. Com.. 293. 327-331 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Yokoi, H., Kobayashi, T., Tanaka, M., Nagahama, Y., Wakamatsu, Y.: "Sox9 in a teleost fish, medaka (Oryzias latipes) : evidence for diversified function of sox9 in gonad differentiation"Mol. Reprod. Develop.. 63. 5-16 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Kondo, M, Froschauer, A, Kitano, A, Nanda, I, Tanaka, M.: "Molecular cloning and characterization of DMRT genes from the medaka Oryzias latipes and the platyfish Xiphophorus maculatus"Gene. 295. 213-222 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Kinoshita, M, Tanaka, M: ""Aquatic Genomics -Steps Towards a Great Future". Transgenic medaka as a model for fish biology and aquaculture"In N. Shimizu, T. Aoki I Hirono and F. Takashima (eds.). 320-328 (2003)

    • Related Report
      2002 Annual Research Report
  • [Publications] Wakamatsu et al.: "The See-through medaka : A fish model that is transparent throughout life"Proc.Nalt.Acad.Sci. U.S.A. 98. 10046-10050 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Tanaka, Kinoshita: "Recent Progress in the generation of transgenic medaka"Zool.Sci.. 18. 615-622 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Tanaka et al.: "Establishment of medaka transgenic lines with the expression of green fluorescent protein fluorescence exclusively in germ cells"Proc.Natl.Acad.Sci. U.S.A. 98. 2544-2549 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] M.Tanaka: "Establishment of medaka (Oryzias latipes) transgenic lines with the expression of GFP fluorescence exclusively in germ cells"Proceeding of National Academy of Science USA. 98. 2544-2549 (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] 木下政人: "トランスジェニックフィッシュ系統の作出とプロモーター解析"蛋白質核酸酵素 増刊 小型魚類研究の新展開. 45. 2954-2961 (2000)

    • Related Report
      2000 Annual Research Report

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Published: 1999-04-01   Modified: 2018-03-28  

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