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Development of technique for digital counting of DNA copy number at the single-cell level

Research Project

Project/Area Number 24360344
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypePartial Multi-year Fund
Section一般
Research Field Biofunction/Bioprocess
Research InstitutionWaseda University

Principal Investigator

TAKEYAMA Haruko  早稲田大学, 理工学術院, 教授 (60262234)

Co-Investigator(Kenkyū-buntansha) YOKOTA Yasuko  国立感染症研究所, 免疫部, 室長 (20182701)
HOSOKAWA Masahito  早稲田大学, ナノ・ライフ創新研究機構, 次席研究員(研究院助教) (60722981)
Project Period (FY) 2012-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥18,980,000 (Direct Cost: ¥14,600,000、Indirect Cost: ¥4,380,000)
Fiscal Year 2014: ¥6,500,000 (Direct Cost: ¥5,000,000、Indirect Cost: ¥1,500,000)
Fiscal Year 2013: ¥6,370,000 (Direct Cost: ¥4,900,000、Indirect Cost: ¥1,470,000)
Fiscal Year 2012: ¥6,110,000 (Direct Cost: ¥4,700,000、Indirect Cost: ¥1,410,000)
KeywordsDNA / HIV / デジタルカウント / 一分子PCR / 単一細胞 / デジタルカウンティング / 1分子PCR / マイクロ流体デバイス
Outline of Final Research Achievements

In this study, we aimed to develop a technique for digital counting of low copy viral DNA within infected cells. We developed a microfluidic device for generation of microdroplets for droplet-based digital PCR. In this method, the target genes were separately amplified within picoliter droplets and detected with fluorescent microscopy. The number of fluorescent droplets correlated with the copy numbers of target genes. In addition, we constructed lentivirus vector modeled after HIV. After optimization of the reaction conditions of droplet digital PCR, we demonstrated its highly sensitive detection of proviral DNA within a small number of infected cells during early infection process.

Report

(4 results)
  • 2014 Annual Research Report   Final Research Report ( PDF )
  • 2013 Annual Research Report
  • 2012 Annual Research Report
  • Research Products

    (26 results)

All 2015 2014 2013 2012 Other

All Journal Article (5 results) (of which Peer Reviewed: 5 results,  Acknowledgement Compliant: 1 results) Presentation (20 results) (of which Invited: 2 results) Book (1 results)

  • [Journal Article] Humanized mice dually challenged with R5 and X4 HIV-1 show preferential R5 viremia and restricted X4 infection of CCR5+CD4+ T cells.2015

    • Author(s)
      Terahara, K., Ishige, M., Ikeno, S., Okada, S., Kobayashi-Ishihara, M., Ato, M., and Tsunetsugu-Yokota, Y
    • Journal Title

      Microbes and Infection

      Volume: 10.1016/j.micinf.2015.02.002 Issue: 5 Pages: 378-386

    • DOI

      10.1016/j.micinf.2015.02.002

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Droplet-Based Microfluidics for High-Throughput Screening of a Metagenomic Library for Isolation of Microbial Enzymes2014

    • Author(s)
      M. Hosokawa, Y. Hoshino, Y. Nishikawa, T. Hirose, D.H. Yoon, T. Mori, T. Sekiguchi, S. Shoji, H. Takeyama
    • Journal Title

      Biosensors and Bioelectronics

      Volume: なし Pages: 379-385

    • DOI

      10.1016/j.bios.2014.08.059

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Sensitive detection of measles virus infection in the blood and tissues of humanized mouse by one-step quantitative RT-PCR2013

    • Author(s)
      Shota Ikeno, Moto-omi Suzuki, Mahmod Muhsen, Masayuki Ishige, Mie Kobayashi, Shinji Ohno, Makoto Takeda, Tetsuo Nakayama, Yuko Morikawa, Kazutaka Terahara, Seiji Okada, Haruko Takeyama, Yasuko Tsunetsugu-Yokota
    • Journal Title

      Frontiers in Microbiology

      Volume: 4 Pages: 298-298

    • DOI

      10.3389/fmicb.2013.00298

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Expansion of activated memory CD4+ T cells affects infectivity of CCR5-tropic HIV-1 in humanized NOD/SCID/JAK3null mice2013

    • Author(s)
      Kazutaka Terahara, Masayuki Ishige, Shota Ikeno, Yu-ya Mitsuki, Seiji Okada, Kazuo Kobayashi, Yasuko Tsunetsugu-Yokota
    • Journal Title

      PLoS ONE

      Volume: 8(1) Issue: 1 Pages: 8-8

    • DOI

      10.1371/journal.pone.0053495

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] HIV-1 infection ex vivoaccelerates measles virus infection by upregulating signaling lymphocytic activation molecule (SLAM) in CD4+T cells2012

    • Author(s)
      Mitsuki Y, Terahara K, Shibusawa K, Yamamoto T, Tsuchiya T, Ishige M, Kobayashi K, Morikawa Y, Nakayama T, Takeda M, Yanagi Y, Tsunetsugu-Yokota Y
    • Journal Title

      J Virol

      Volume: 86 Issue: 13 Pages: 7227-7234

    • DOI

      10.1128/jvi.06681-11

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Presentation] マイクロドロップレットを反応場とした1分子DNA増幅法の応用2015

    • Author(s)
      細川 正人,西川 洋平,川井 聡子,横田(恒次)恭子,竹山 春子
    • Organizer
      電気化学学会第82回大会
    • Place of Presentation
      横浜国立大学(神奈川県)
    • Year and Date
      2015-03-15
    • Related Report
      2014 Annual Research Report
  • [Presentation] 恒常的に培養維持されたCD4陽性T細胞へのHIV-1の感染とその転写制御機構の解明2014

    • Author(s)
      和田倭、小林(石原)美栄、寺原和孝、池野翔太、徳永研三、立川(川名)愛、山岸誠、竹山春子、横田(恒次)恭子
    • Organizer
      第62回日本ウイルス学会学術集会
    • Place of Presentation
      パシフィコ横浜(神奈川県)
    • Year and Date
      2014-11-12
    • Related Report
      2014 Annual Research Report
  • [Presentation] ヒト化マウスの麻疹ウイルスベクター評価系への応用(3)2014

    • Author(s)
      池野 翔太、寺原 和孝、 駒瀬 勝啓、竹田 誠、 森川 裕子、 竹山 春子、横田(恒次)恭子
    • Organizer
      第62回日本ウイルス学会学術集会
    • Place of Presentation
      パシフィコ横浜(神奈川県)
    • Year and Date
      2014-11-11
    • Related Report
      2014 Annual Research Report
  • [Presentation] R5・X4 HIV-1混在感染ヒト化マウスの感染早期にみられるR5ウイルス優位性とその要因について2014

    • Author(s)
      寺原和孝、石毛真行、池野翔太、小林(石原)美栄、岡田誠治、横田(恒次)恭子
    • Organizer
      第62回日本ウイルス学会学術集会
    • Place of Presentation
      パシフィコ横浜(神奈川県)
    • Year and Date
      2014-11-10
    • Related Report
      2014 Annual Research Report
  • [Presentation] 海洋無脊椎動物共在微生物の遺伝子情報の解析と利活用2014

    • Author(s)
      竹山春子
    • Organizer
      2014年生物工学フォーラム「先端技術による新たなバイオテクノロジー」
    • Place of Presentation
      理化学研究所 大河内記念ホール(埼玉県)
    • Year and Date
      2014-07-25
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] 海洋遺伝子資源利用と解析ツール開発2014

    • Author(s)
      竹山春子
    • Organizer
      「生合成マシナリー:生物活性物質構造多様性創出システムの解明と制御」第7回公開シンポジウム
    • Place of Presentation
      東工大蔵前会館 くらまえホール(東京都)
    • Year and Date
      2014-06-21
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Development of Capillary-Plate-Based Digital PCR System for Analysis of HIV in Single-Cells2012

    • Author(s)
      Motoomi Suzuki, Tetsushi Mori, Kazutaka Terahara, Yasuko Yokota-Tsunetsugu, Haruko Takeyama
    • Organizer
      International Joint Symposium on Single-Cell Analysis (The 6th International Workshop on Approaches to Single-Cell Analysis & The 8th International Forum on Post-Genome Technologies)
    • Place of Presentation
      京都市、京都
    • Year and Date
      2012-11-27
    • Related Report
      2012 Annual Research Report
  • [Presentation] Development of a high-throughput microfluidic system for screening of single bacterial cells2012

    • Author(s)
      Yuri Hoshino, Tomotada Hirose, Donghyun Yoon, Tetsushi Mori, Tetsushi Sekiguchi, Shuichi Shoji, Haruko Takeyama
    • Organizer
      International Joint Symposium on Single-Cell Analysis (The 6th International Workshop on Approaches to Single-Cell Analysis & The 8th International Forum on Post-Genome Technologies)
    • Place of Presentation
      京都市、京都
    • Year and Date
      2012-11-27
    • Related Report
      2012 Annual Research Report
  • [Presentation] 海洋遺伝子資源の有効活用とシングルセル解析研究について2012

    • Author(s)
      竹山春子
    • Organizer
      第50回ワーキンググループ会議
    • Place of Presentation
      新宿、東京
    • Year and Date
      2012-11-21
    • Related Report
      2012 Annual Research Report
  • [Presentation] キャピラリープレートを用いた単一細胞解析のためのデジタルPCR法の開発とHIV研究へのアプローチ2012

    • Author(s)
      鈴木基臣、モリテツシ、寺原和孝、横田(恒次)恭子、竹山春子
    • Organizer
      第6回バイオ関連化学シンポジウム
    • Place of Presentation
      札幌市、北海道
    • Year and Date
      2012-09-06
    • Related Report
      2012 Annual Research Report
  • [Presentation] Development of High-throughput Screening System using Microfluidic Device2012

    • Author(s)
      Yuri Hoshino, Tomotada Hirose, Donghyun Yoon, Tetsushi Mori, Tetsushi Sekiguchi, Shuichi Shoji, Haruko Takeyama
    • Organizer
      The 9th Asia-Pacific Marine Biotechnology Conference
    • Place of Presentation
      高知市、高知
    • Year and Date
      2012-07-13
    • Related Report
      2012 Annual Research Report
  • [Presentation] Humanized mice as animal model for Human-tropic virus infection2012

    • Author(s)
      Tsunetsugu-Yokota, Y., Ishige, M., Ikeno, S., and Terahara, K.
    • Organizer
      Immunological Mechanisms of Vaccination, Keystone Symposium
    • Place of Presentation
      Ottawa, Canada
    • Related Report
      2012 Annual Research Report
  • [Presentation] Development of Droplet-Based Single-Cell Analysis System for Enzyme Screening from Metagenome Library

    • Author(s)
      Masahito Hosokawa, Yuri Hoshino, Tomotada Hirose, Donghyun Yoon, Tetsushi Mori, Tetsushi Sekiguchi, Shuichi Shoji, Haruko Takeyama
    • Organizer
      Fronties of Single Cell Analysis
    • Place of Presentation
      Stanford University (米国)
    • Related Report
      2013 Annual Research Report
  • [Presentation] 単一細胞封入ドロップレットを用いた微生物の薬剤感受性評価

    • Author(s)
      西川洋平、細川正人、星野友梨、廣瀬智渉、尹棟鉉、モリテツシ、関口哲志、庄子習一、竹山春子
    • Organizer
      電気化学会第81回大会
    • Place of Presentation
      関西大学
    • Related Report
      2013 Annual Research Report
  • [Presentation] HIVの初期感染過程の解析のためのドロップレットデジタルPCR 法の確立

    • Author(s)
      和田倭、細川正人、小林(石原)美栄 、モリテツシ、関口哲志、庄子習一、横田(恒次)恭子 、竹山春子
    • Organizer
      日本化学会第94春季年会
    • Place of Presentation
      名古屋大学
    • Related Report
      2013 Annual Research Report
  • [Presentation] マイクロドロップレットを利用した難培養微生物からの遺伝子獲得

    • Author(s)
      細川正人、星野友梨、廣瀬智渉、尹棟鉉、モリテツシ、関口哲志、庄子習一、竹山春子
    • Organizer
      第23回インテリジェント材料・システムシンポジウム
    • Place of Presentation
      早稲田大学
    • Related Report
      2013 Annual Research Report
  • [Presentation] マイクロ流体デバイスを用いた酵素遺伝子のハイスループットスクリーニング法の開発

    • Author(s)
      星野友梨、細川正人、廣瀬智渉、ユンドンヒョン、モリテツシ、関口哲志、庄子習一、竹山春子
    • Organizer
      第3回 CSJ化学フェスタ
    • Place of Presentation
      タワーホール船堀
    • Related Report
      2013 Annual Research Report
  • [Presentation] マイクロ流体デバイスを用いた遺伝子スクリーニング法の開発

    • Author(s)
      星野友梨、細川正人、廣瀬智渉、ユンドンヒョン、モリテツシ、関口哲志、庄子習一、竹山春子
    • Organizer
      第7回 バイオ関連化学シンポジウム
    • Place of Presentation
      名古屋大学
    • Related Report
      2013 Annual Research Report
  • [Presentation] マイクロ流体デバイスを用いた微生物スクリーニングシステムの開発

    • Author(s)
      細川正人、星野友梨、廣瀬智渉、ユン ドン ヒョン、モリテツシ、関口哲志、庄子習一、竹山春子
    • Organizer
      2013年電気化学秋季大会
    • Place of Presentation
      東京工業大学
    • Related Report
      2013 Annual Research Report
  • [Presentation] ヒト化マウスの麻疹ウイルスベクター評価系への応用

    • Author(s)
      池野翔太、鈴木基臣、寺原和孝、石毛真行、駒瀬勝啓、竹田誠、森川裕子、中山哲夫、柳雄介、竹山春子、横田恭子
    • Organizer
      第61回日本ウイルス学会学術集会
    • Place of Presentation
      神戸国際会議場
    • Related Report
      2013 Annual Research Report
  • [Book] 遺伝子工学(近藤昭彦・芝崎誠司編著)2012

    • Author(s)
      竹山春子
    • Total Pages
      4
    • Publisher
      化学同人(分担執筆:第11章 バイオ計測の項)
    • Related Report
      2012 Annual Research Report

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Published: 2012-04-24   Modified: 2019-07-29  

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