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Detection of novel interspersed repeat regions to differentiate among human populations in/near Japan and development of a method to estimate the populations

Research Project

Project/Area Number 25670342
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field Legal medicine
Research InstitutionNagoya University

Principal Investigator

Yamamoto Toshimichi  名古屋大学, 医学(系)研究科(研究院), 准教授 (50260592)

Co-Investigator(Renkei-kenkyūsha) SAITOU Naruya  国立遺伝学研究所, 集団遺伝学系, 教授 (30192587)
Project Period (FY) 2013-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2015: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2014: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2013: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Keywords法医学 / 人類学 / 遺伝的異質性 / 反復配列 / 分散型 / Alu配列 / 縦列型 / STR / ヒト集団遺伝学 / ゲノム科学 / 繰り返し配列
Outline of Final Research Achievements

In the present study, younger Alu Y family was focused on among some kind of interspersed Alu elements which have very high mutation rates to differentiate between genetically very close populations such as Japanese and Koreans. A transposon display method as the first step to detect novel interspersed repeat regions to differentiate among human populations in/near Japan and development was completed.
Alternatively, using more than 100 loci for short tandem repeats (STRs), a kind of tandem repeats, 2D dots for individuals by a factorial correspondence analysis revealed that Japanese and Korean populations could be categorized into two groups. When we calculated Bayes factors for these individuals based on Dirichlet multi-nominal distribution. Summary of those factors for two populations, showed about 92% of Japanese were strongly suggested as Japanese. More number of data for each population could be necessary to differentiate between both populations more accurately.

Report

(4 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Research-status Report
  • 2013 Research-status Report
  • Research Products

    (26 results)

All 2015 2014 2013 Other

All Journal Article (12 results) (of which Peer Reviewed: 9 results,  Acknowledgement Compliant: 3 results,  Open Access: 3 results) Presentation (14 results) (of which Int'l Joint Research: 2 results,  Invited: 1 results)

  • [Journal Article] Potential statistical differentiation between Japanese and Korean populations with about 100 STRs2015

    • Author(s)
      Toshimichi Yamamotoa, Yuuji Hiroshige, Hisae Ogawa, Takashi Yoshimoto, Shuhei Mano
    • Journal Title

      Forensic Science International: Genetics Supplement Series

      Volume: 5 Pages: e348-e349

    • DOI

      10.1016/j.fsigss.2015.09.138

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 日本人と近隣ヒト集団における多座位STRsによる遺伝統計学的判別法の検討(第1報)2015

    • Author(s)
      山本敏充,廣重優二,小川久恵,吉本高士,間野修平
    • Journal Title

      DNA多型

      Volume: 23 Pages: 128-130

    • Related Report
      2015 Annual Research Report
  • [Journal Article] Species specificities among primates probed with commercially available fluorescence-based multiplex PCR typing kits2015

    • Author(s)
      Yuuji Hiroshige, Hiroyuki Ohtaki, Takashi Yoshimoto, Hisae Ogawa, Akira Ishii, Toshimichi Yamamoto
    • Journal Title

      Legal Medicine

      Volume: 17 Issue: 5 Pages: 326-333

    • DOI

      10.1016/j.legalmed.2015.03.006

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] CD109 attenuates TGF-β1 signaling and enhances EGF signaling in SK-MG-1 human glioblastoma cells.2015

    • Author(s)
      Jing-Min Zhang, Yoshiki Murakumo, Sumitaka Hagiwara, Ping Jiang, Shinji Mii, Emir Kalyoncu, Shoji Saito, Chikage Suzuki, Yasutaka Sakurai, Yoshiko Numata, Toshimichi Yamamoto, Masahide Takahashi
    • Journal Title

      Biochemical and Biophysical Research Communications

      Volume: 459 Issue: 2 Pages: 252-258

    • DOI

      10.1016/j.bbrc.2015.02.093

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Identification of causative pregnancy of gestational trophoblastic neoplasia diagnosed during pregnancy by short tandem repeat analysis.2014

    • Author(s)
      Yamamoto E, Niimi K, Shinjo K, Yamamoto T, Fukunaga M, Kikkawa F.
    • Journal Title

      Gynecol Oncol Case Rep.

      Volume: 18 Pages: 3-6

    • DOI

      10.1016/j.gynor.2014.04.001

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Revertant Mutation Releases Confined Lethal Mutation, Opening Pandora' s Box : A Novel Genetic Pathogenesis2014

    • Author(s)
      Ogawa Y, Takeichi T, Kono M, Hamajima N, Yamamoto T, Sugiura K, Akiyama M
    • Journal Title

      PLoS Genet

      Volume: 10(5) Issue: 5 Pages: e1004276-e1004276

    • DOI

      10.1371/journal.pgen.1004276

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Ovarian mucinous tumors arising from mature cystic teratomas - a molecular genetic approach for understanding the cellular origin.2014

    • Author(s)
      Kaho Fujii, Yoriko Yamashita, Toshimichi Yamamoto, Koji Takahashi, Katsunori Hashimoto, Tomoko Miyata, Kumi Kawai, Fumitaka Kikkawa, Shinya Toyokuni, Tetsuro Nagasaka
    • Journal Title

      Human Pathology

      Volume: 45 Pages: 717-724

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] 5地域のモンゴル人におけるYハプログループ及びY-STRsハプロタイプ解析並びに日本人との比較.2014

    • Author(s)
      山本敏充,廣重優二,小川久恵,吉本高士
    • Journal Title

      DNA多型

      Volume: 22 Pages: 105-108

    • Related Report
      2014 Research-status Report
  • [Journal Article] Ovarian mucinous tumors arising from mature cystic teratomas--a molecular genetic approach for understanding the cellular origin.2014

    • Author(s)
      Fujii K, Yamashita Y, Yamamoto T, Takahashi K, Hashimoto K, Miyata T, Kawai K, Kikkawa F, Toyokuni S, Nagasaka T
    • Journal Title

      Hum Pathol

      Volume: 45 Issue: 4 Pages: 717-724

    • DOI

      10.1016/j.humpath.2013.10.031

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Y-chromosome lineage in five regional Mongolian populations2013

    • Author(s)
      Toshimichi Yamamoto, Tomoki Senda, Daiki Horiba, Masayoshi Sakuma, Yuuka Kawaguchi, Yuuichi Kano
    • Journal Title

      Forensic Science International: Genetics Supplement Series

      Volume: 4 Issue: 1 Pages: e260-e261

    • DOI

      10.1016/j.fsigss.2013.10.133

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] 自然脱落毛からのSTR型検出のための判定基準2013

    • Author(s)
      廣重優二,山本敏充,吉本高士,石井晃
    • Journal Title

      日本法科学技術学会誌

      Volume: 18 Pages: 97-111

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] モンゴルの2地域ヒト集団におけるYハプログループ解析2013

    • Author(s)
      廣重優二,山本敏充,吉本高士
    • Journal Title

      DNA多型

      Volume: 21 Pages: 127-129

    • Related Report
      2013 Research-status Report
  • [Presentation] インドネシアにおける“Midi-6”のアレル頻度分布及び他のヒト集団との比較2015

    • Author(s)
      山本敏充,廣重優二,小川久恵,吉本高士,石井晃,Tuntas Dhanardhono
    • Organizer
      日本DNA多型学会第24回学術集会
    • Place of Presentation
      岡山大学創立五十周年記念館(岡山県・岡山市)
    • Year and Date
      2015-11-19
    • Related Report
      2015 Annual Research Report
  • [Presentation] 105 座位のSTRs による日本人と近隣ヒト集団間の遺伝的異質性2015

    • Author(s)
      山本敏充,佃康司,間野修平
    • Organizer
      第69回日本人類学会大会
    • Place of Presentation
      産業技術総合研究所臨海副都心センター別館(東京都・江東区)
    • Year and Date
      2015-10-10
    • Related Report
      2015 Annual Research Report
  • [Presentation] Analysis on Y-STRs and Y haplogroups in Indonesia2015

    • Author(s)
      Toshimichi Yamamoto, Akira Shirakawa, Tuntas Dhanardhono
    • Organizer
      7th European Association of Forensic Science Conference 2015
    • Place of Presentation
      Plague, Czech Republic
    • Year and Date
      2015-09-06
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Potential statistical differentiation between Japanese and Korean populations with about 100 STRs2015

    • Author(s)
      Toshimichi Yamamoto, Yuuji Hiroshige, Hisae Ogawa, Takashi Yoshimoto, Shuhei Mano
    • Organizer
      26th International Congress 2015 of the International Society of Forensic Genetics
    • Place of Presentation
      Krakow, Poland
    • Year and Date
      2015-08-31
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 日本人における257座位の4塩基リピートSTRsのアレル頻度及び統計学的解析2015

    • Author(s)
      山本敏充,小川久恵,廣重優二,吉本高士,草野麻衣子,財津桂,石井晃
    • Organizer
      第99次日本法医学会学術全国集会
    • Place of Presentation
      高知市文化プラザかるぽーと(高知県・高知市)
    • Year and Date
      2015-06-11
    • Related Report
      2015 Annual Research Report
  • [Presentation] Further potential applications of autosomal and Y chromosomal STRs.2015

    • Author(s)
      Toshimichi Yamamoto
    • Organizer
      2015 International Symposium on Forensic DNA in Law
    • Place of Presentation
      ソウル,大韓民国
    • Year and Date
      2015-03-26 – 2015-03-27
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] 日本人と近隣ヒト集団における多座位STRsによる遺伝統計学的判別法の検討(第1報)2014

    • Author(s)
      山本敏充,廣重優二,小川久恵,吉本高士,間野修平
    • Organizer
      日本DNA多型学会第23回学術集会
    • Place of Presentation
      ウインクあいち(愛知県・名古屋市)
    • Year and Date
      2014-11-27 – 2014-11-28
    • Related Report
      2014 Research-status Report
  • [Presentation] Population Genetic Study of Six Mini STR `Midi 6` Systems in Indonesian Population.2014

    • Author(s)
      Tuntas Dhanardhono, Toshimichi Yamamoto, Sigid Kirana, Kunthi Yulianti, Rika Susanti, Erwin Kristanto, Akira Ishii
    • Organizer
      International Association of Foresic Sciences 2014
    • Place of Presentation
      ソウル,大韓民国
    • Year and Date
      2014-10-15 – 2014-10-17
    • Related Report
      2014 Research-status Report
  • [Presentation] Y-STR haplotype network analysis in Mongolian populations.2014

    • Author(s)
      Toshimichi Yamamoto, Yuuji Hiroshige, Hisae Ogawa, Tomoki Senda, Daiki Horiba, Masayoshi Sakuma, Yuuka Kawaguchi, Yuuichi Kano, Kei Zaitsu, Takashi Yoshimoto, Akira Ishii
    • Organizer
      9th International Symposium on Advances in Legal Medicine
    • Place of Presentation
      福岡国際会議場(福岡県・福岡市)
    • Year and Date
      2014-06-16 – 2014-06-20
    • Related Report
      2014 Research-status Report
  • [Presentation] Network analysis for Y-STRs among ethnic minority groups in South America2014

    • Author(s)
      Toshimichi Yamamoto, Hajime Araki, Masayoshi Sakuma, Yuuka Kawaguchi, Yuuichi Kano, Tomoki Senda, Daiki Horiba, Inaho Danjoh, Yukio Nakamura
    • Organizer
      English Speaking Working Group-International Society of Forensic Genetics 2014
    • Place of Presentation
      アテネ,ギリシャ
    • Year and Date
      2014-05-28 – 2014-05-30
    • Related Report
      2014 Research-status Report
  • [Presentation] Y-chromosome lineage in five regional Mongolian populations2013

    • Author(s)
      Toshimichi Yamamoto, Tomoki Sends, Daiki Horiba Masayoshi Sakuma, Yuuka Kawaguchi, Yuuichi Kano
    • Organizer
      25th International Society of Forensic Genetics
    • Place of Presentation
      メルボルン,オーストラリア
    • Related Report
      2013 Research-status Report
  • [Presentation] “Midi-6”システムが有効であったパラフィンブロックからの親子鑑定例

    • Author(s)
      山本敏充,吉本高士,廣重優二,財津桂,石井晃
    • Organizer
      第97次日本法医学会学術全国集会
    • Place of Presentation
      ロイトン札幌(札幌市)
    • Related Report
      2013 Research-status Report
  • [Presentation] Network analysis for Y-STRs haplotypes among ethnic minority groups in South America

    • Author(s)
      山本敏充,檀上稲穂,中村幸夫
    • Organizer
      第67回日本人類学会大会
    • Place of Presentation
      国立科学博物館筑波研究施設(つくば市)
    • Related Report
      2013 Research-status Report
  • [Presentation] 5地域のモンゴル人におけるYハプログループ及びY-STRsハプロタイプ解析並びに日本人との比較

    • Author(s)
      山本敏充,廣重優二,小川久恵,吉本高士
    • Organizer
      日本DNA多型学会第22回学術集会
    • Place of Presentation
      仙台市戦災復興記念館(仙台市)
    • Related Report
      2013 Research-status Report

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Published: 2014-07-25   Modified: 2019-07-29  

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